Rmu_sc0011540.1_g000002

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0011540.1
OG0016866
Physical Location & Seq
Reverse (-)
9038 .. 11002
1965 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0011540.1_g000002.1.cds

Sequence Viewer

Length: 1965 bp
atgaagagagctgtggataaaggggttgaaagcaatgggttcttggggagttcaatggtaaactttttgatgaaattcggtaatgttgatgaggcgcagaggtgttttgataagatgccggaaagagatgttgtttgttggaattcgatgattggtggctatgtgcaagctggtcagttcggcaaggcatttgatttgtttcatgaaatgtgtgattgcggcattaggcctagttcagtaactatgctgagcatgattcaagtatgcattaaaactgcggatttcaagcttgcgaaatgtgttcatggtagcatagttggactgggaatgagcaatgaggtttcggtgcttacctcgttggttgatatgtatagtaatattggtgacgtgcttagtgcatgttgggtttttgagaccatgcccaaaagaaatttggtttcgtggaatgtcatgatctcaggatgtgttcaaaatggtatggtgcatgaatcgtttgccttctttggtagattagttgcaagtggtgttaggtttgattcagggaccatggtgagcctaattcagggttgttcccaaacagctgatttgaaaggtggaaaaatcctacactgttgttcattaaggaggggttttgacttaaatcccattttgtccactgccactgttgatctttactctaaatgtggtgcagtaaagcaggcaacttttgtctttgacagaatggaagagaggaatgttattacatggaccgctatgcttgtgggactaacacaaaatgggcatgcagaagaagccttgaagctattctgtcagatgcaaaaagagggagttgctgccaattcagtgacactggttagtttagtccattcttgtgcccatttgggctctctgaagaaaggaaagagtgttcatgctcacataatccggcagggccattcatttgacatagttaacatgacatccttaattgatatgtatgccaagtgtggaacaataaagtatgctgagaggatatttaacaatggctccatttgtagagatgttatcctatggaactctatgataacaagctatggtattcatggtcatggacagcaagctcttggtatgtatagaaaaatgaaggaggagggatttgagccaaacgaaacctcctttctttctcttctaactgcttgtagtcactcaggccttcttgaagagggcatgaagtttttccacagcatggagagaaaccataacattaggctgacagaaaaacactatgcaagttttgtggatcttctaagcagagcaggcagatttgaagaagctgaggcattgattgaacaaatgccttttaaaccaggaagctctgtttttgaagcattgctcagtggatgtcaagctcacaagaacattgaactgggtctaaagacggcagatagattactttgtattgattccatgaatcctagtgtttatgtcgttgtttcaaatatttatgctcaagcaaggagatgggatgatgtgaactacattcgaaacctcatgaggacaagaggactgaggaaaacacccgggtgtagcttgattgaagtgggaaaccaggtccacacattcttcgctggagacaattcacatcctaattgggcagagatttatcagcatttagagaacataagagtagaagtggaggcttctggttatatccccaatacaagcagtgttcttcgcaatgtggatgatccaatgaagataaggctgctatgggggcacagcgagagattagccattgcatttgggctcttaagtacaccagctgggagcttgattagaatcacaaagaatctaagagtgtgtgttgattgtcacaatgtgactaaacttatatcaaagatgatgaggagggagcttattgtgagagatgccaatcgttttcatcactttgtgaatgggaagtgctcttgtaatgattactggtga
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DYW_deaminase PPR PPR_2

Protein Analysis

654

Amino Acids

73.02

Weight (kDa)

8.41

Isoelectric Point (pI)

34.35

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016866)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g04050
malus_domestica MD04G1216800.v1.1
prunus_persica Prupe.6G336500_v2.0.a1
pyrus_communis pycom04g19280
rosa_chinensis RchiOBHm_Chr3g0452611
rosa_laevigata RLG00000025578
rosa_multiflora Rmu_sc0011540.1_g000002 Rmu_sc0034042.1_g000001
rosa_roxburghii Rroxscaffold_6G00429650
rosa_rugosa Rorug02G0641700
rosa_samantha Rh3AG044200 Rh3BG046500 Rh3DG045500
rosa_wichuraiana Rw3G003440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 1225
AciI CCGC 3 cut(s) 219, 278, 750
AclWI GGATC 2 cut(s) 1287, 1721
AcsI RAATTY 3 cut(s) 74, 142, 430
AcuI CTGAAG 1 cut(s) 911
AdeI CACNNNGTG 2 cut(s) 1858, 1930
AfaI GTAC 1 cut(s) 1795
AfiI CCNNNNNNNGG 2 cut(s) 562, 1225
AflII CTTAAG 1 cut(s) 1789
AjiI CACGTC 1 cut(s) 388
AjnI CCWGG 2 cut(s) 1345, 1587
AleI CACNNNNGTG 1 cut(s) 1561
AloI GAACNNNNNNTCC 2 cut(s) 891, 923
Alw21I GWGCWC 1 cut(s) 1946
Alw26I GTCTC 2 cut(s) 407, 1605
AlwI GGATC 2 cut(s) 1287, 1721
Ama87I CYCGRG 1 cut(s) 1559
AoxI GGCC 3 cut(s) 227, 931, 1189
ApeKI GCWGC 2 cut(s) 833, 1744
ApoI RAATTY 3 cut(s) 74, 142, 430
Asp700I GAANNNNTTC 2 cut(s) 803, 1214
AspLEI GCGC 1 cut(s) 97
AspS9I GGNCC 4 cut(s) 543, 747, 931, 1591
AsuC2I CCSGG 2 cut(s) 1560, 1561
AsuHPI GGTGA 2 cut(s) 395, 562
AsuII TTCGAA 1 cut(s) 1522
AvaI CYCGRG 1 cut(s) 1559
AvaII GGWCC 3 cut(s) 543, 747, 1591
BaeGI GKGCMC 2 cut(s) 877, 1758
BanII GRGCYC 2 cut(s) 887, 1788
Bbv12I GWGCWC 1 cut(s) 1946
BbvCI CCTCAGC 1 cut(s) 1314
BbvI GCAGC 2 cut(s) 820, 1731
BccI CCATC 1 cut(s) 1494
BceAI ACGGC 1 cut(s) 1434
BciT130I CCWGG 2 cut(s) 1347, 1589
BcnI CCSGG 2 cut(s) 1560, 1561
BcoDI GTCTC 2 cut(s) 407, 1605
BfaI CTAG 2 cut(s) 231, 1455
BfrI CTTAAG 1 cut(s) 1789
BisI GCNGC 3 cut(s) 220, 834, 1745
BlpI GCTNAGC 1 cut(s) 248
BlsI GCNGC 3 cut(s) 221, 835, 1746
Bme1390I CCNGG 4 cut(s) 1347, 1560, 1561, 1589
Bme18I GGWCC 3 cut(s) 543, 747, 1591
BmeT110I CYCGRG 1 cut(s) 1559
BmgBI CACGTC 1 cut(s) 388
BmgT120I GGNCC 4 cut(s) 543, 747, 931, 1591
BmiI GGNNCC 2 cut(s) 544, 1027
BmrFI CCNGG 4 cut(s) 1347, 1560, 1561, 1589
BmrI ACTGGG 2 cut(s) 332, 1415
BmsI GCATC 3 cut(s) 105, 804, 1897
BmuI ACTGGG 2 cut(s) 332, 1415
BpmI CTGGAG 1 cut(s) 1629
Bpu10I CCTNAGC 1 cut(s) 1314
Bpu1102I GCTNAGC 1 cut(s) 248
Bpu14I TTCGAA 1 cut(s) 1522
BpuEI CTTGAG 1 cut(s) 1473
BpuMI CCSGG 2 cut(s) 1560, 1561
BsaBI GATNNNNATC 2 cut(s) 1817, 1911
BsaI GGTCTC 1 cut(s) 407
BsaJI CCNNGG 2 cut(s) 546, 1559
BsaXI ACNNNNNCTCC 4 cut(s) 1010, 1040, 1136, 1166
Bsc4I CCNNNNNNNGG 2 cut(s) 562, 1225
Bse1I ACTGG 4 cut(s) 327, 855, 1410, 1964
Bse3DI GCAATG 5 cut(s) 40, 340, 1367, 1723, 1773
Bse8I GATNNNNATC 2 cut(s) 1817, 1911
BseBI CCWGG 2 cut(s) 1347, 1589
BseDI CCNNGG 2 cut(s) 546, 1559
BseGI GGATG 6 cut(s) 467, 959, 1385, 1510, 1621, 1729
BseJI GATNNNNATC 2 cut(s) 1817, 1911
BseLI CCNNNNNNNGG 2 cut(s) 562, 1225
BseMI GCAATG 5 cut(s) 40, 340, 1367, 1723, 1773
BseMII CTCAG 7 cut(s) 239, 471, 996, 1200, 1305, 1387, 1538
BseNI ACTGG 4 cut(s) 327, 855, 1410, 1964
BseRI GAGGAG 2 cut(s) 1142, 1900
BseSI GKGCMC 2 cut(s) 877, 1758
BseXI GCAGC 2 cut(s) 820, 1731
BseYI CCCAGC 1 cut(s) 1802
BsgI GTGCAG 1 cut(s) 708
BshFI GGCC 3 cut(s) 229, 933, 1191
BsiHKAI GWGCWC 1 cut(s) 1946
BsiHKCI CYCGRG 1 cut(s) 1559
BsiSI CCGG 3 cut(s) 119, 925, 1560
BslFI GGGAC 2 cut(s) 556, 777
BslI CCNNNNNNNGG 2 cut(s) 562, 1225
BsmAI GTCTC 2 cut(s) 407, 1605
BsmFI GGGAC 2 cut(s) 556, 777
BsnI GGCC 3 cut(s) 229, 933, 1191
Bso31I GGTCTC 1 cut(s) 407
BsoBI CYCGRG 1 cut(s) 1559
Bsp119I TTCGAA 1 cut(s) 1522
Bsp1286I GDGCHC 5 cut(s) 877, 887, 1758, 1788, 1946
Bsp143I GATC 4 cut(s) 453, 667, 1279, 1726
Bsp1720I GCTNAGC 1 cut(s) 248
Bsp19I CCATGG 1 cut(s) 546
BspACI CCGC 3 cut(s) 219, 278, 750
BspANI GGCC 3 cut(s) 229, 933, 1191
BspCNI CTCAG 7 cut(s) 240, 470, 997, 1199, 1306, 1386, 1539
BspHI TCATGA 3 cut(s) 202, 450, 1530
BspLI GGNNCC 2 cut(s) 544, 1027
BspPI GGATC 2 cut(s) 1287, 1721
BspT104I TTCGAA 1 cut(s) 1522
BspTI CTTAAG 1 cut(s) 1789
BspTNI GGTCTC 1 cut(s) 407
BsrDI GCAATG 5 cut(s) 40, 340, 1367, 1723, 1773
BsrI ACTGG 4 cut(s) 327, 855, 1410, 1964
BssECI CCNNGG 2 cut(s) 546, 1559
BssMI GATC 4 cut(s) 453, 667, 1279, 1726
BssT1I CCWWGG 1 cut(s) 546
Bst2UI CCWGG 2 cut(s) 1347, 1589
Bst4CI ACNGT 2 cut(s) 611, 664
Bst6I CTCTTC 3 cut(s) 720, 1170, 1194
BstAFI CTTAAG 1 cut(s) 1789
BstBI TTCGAA 1 cut(s) 1522
BstC8I GCNNGC 6 cut(s) 168, 291, 699, 783, 1098, 1297
BstDSI CCRYGG 1 cut(s) 546
BstENI CCTNNNNNAGG 1 cut(s) 560
BstF5I GGATG 6 cut(s) 467, 959, 1385, 1510, 1621, 1729
BstHHI GCGC 1 cut(s) 97
BstKTI GATC 4 cut(s) 456, 670, 1282, 1729
BstMAI GTCTC 2 cut(s) 407, 1605
BstMBI GATC 4 cut(s) 453, 667, 1279, 1726
BstMWI GCNNNNNNNGC 3 cut(s) 791, 1296, 1753
BstNI CCWGG 2 cut(s) 1347, 1589
BstNSI RCATGY 2 cut(s) 402, 785
BstSCI CCNGG 4 cut(s) 1345, 1558, 1559, 1587
BstSLI GKGCMC 2 cut(s) 877, 1758
BstV1I GCAGC 2 cut(s) 820, 1731
BstX2I RGATCY 1 cut(s) 1279
BstYI RGATCY 1 cut(s) 1279
BsuRI GGCC 3 cut(s) 229, 933, 1191
BtgI CCRYGG 1 cut(s) 546
BtrI CACGTC 1 cut(s) 388
BtsCI GGATG 6 cut(s) 467, 959, 1385, 1510, 1621, 1729
BtsI GCAGTG 2 cut(s) 654, 1711
BtsIMutI CAGTG 7 cut(s) 607, 654, 660, 848, 849, 1381, 1711
Cac8I GCNNGC 6 cut(s) 168, 291, 699, 783, 1098, 1297
CciI TCATGA 3 cut(s) 202, 450, 1530
CfoI GCGC 1 cut(s) 97
Cfr13I GGNCC 4 cut(s) 543, 747, 931, 1591
Cfr9I CCCGGG 1 cut(s) 1559
CsiI ACCWGGT 1 cut(s) 1587
Csp6I GTAC 1 cut(s) 1794
CspCI CAANNNNNGTGG 2 cut(s) 1257, 1292
CviQI GTAC 1 cut(s) 1794
DpnI GATC 4 cut(s) 455, 669, 1281, 1728
DpnII GATC 4 cut(s) 453, 667, 1279, 1726
DraI TTTAAA 1 cut(s) 1342
DraIII CACNNNGTG 2 cut(s) 1858, 1930
Eam1104I CTCTTC 3 cut(s) 720, 1170, 1194
EarI CTCTTC 3 cut(s) 720, 1170, 1194
Eco130I CCWWGG 1 cut(s) 546
Eco147I AGGCCT 2 cut(s) 229, 1191
Eco24I GRGCYC 2 cut(s) 887, 1788
Eco31I GGTCTC 1 cut(s) 407
Eco47I GGWCC 3 cut(s) 543, 747, 1591
Eco57I CTGAAG 1 cut(s) 911
Eco88I CYCGRG 1 cut(s) 1559
EcoNI CCTNNNNNAGG 1 cut(s) 560
EcoRI GAATTC 1 cut(s) 142
EcoRII CCWGG 2 cut(s) 1345, 1587
EcoT14I CCWWGG 1 cut(s) 546
EcoT22I ATGCAT 1 cut(s) 269
EcoT38I GRGCYC 2 cut(s) 887, 1788
ErhI CCWWGG 1 cut(s) 546
FaqI GGGAC 2 cut(s) 556, 777
Fnu4HI GCNGC 3 cut(s) 220, 834, 1745
FokI GGATG 6 cut(s) 474, 946, 1392, 1517, 1608, 1736
FriOI GRGCYC 2 cut(s) 887, 1788
Fsp4HI GCNGC 3 cut(s) 220, 834, 1745
FspBI CTAG 2 cut(s) 231, 1455
GlaI GCGC 1 cut(s) 96
GluI GCNGC 3 cut(s) 220, 834, 1745
GsaI CCCAGC 1 cut(s) 1806
GsuI CTGGAG 1 cut(s) 1629
HaeIII GGCC 3 cut(s) 229, 933, 1191
HapII CCGG 3 cut(s) 119, 925, 1560
HhaI GCGC 1 cut(s) 97
Hin6I GCGC 1 cut(s) 95
HinP1I GCGC 1 cut(s) 95
HincII GTYRAC 1 cut(s) 952
HindII GTYRAC 1 cut(s) 952
HindIII AAGCTT 1 cut(s) 287
HinfI GANTC 7 cut(s) 256, 488, 536, 1442, 1450, 1818, 1828
HpaI GTTAAC 1 cut(s) 952
HpaII CCGG 3 cut(s) 119, 925, 1560
HphI GGTGA 2 cut(s) 395, 562
Hpy166II GTNNAC 6 cut(s) 61, 654, 952, 1513, 1594, 1796
Hpy188I TCNGA 2 cut(s) 813, 891
Hpy188III TCNNGA 5 cut(s) 203, 451, 459, 1196, 1531
Hpy8I GTNNAC 6 cut(s) 61, 654, 952, 1513, 1594, 1796
HpyAV CCTTC 3 cut(s) 508, 1117, 1202
HpyCH4III ACNGT 2 cut(s) 611, 664
HpyCH4IV ACGT 1 cut(s) 387
HpyF10VI GCNNNNNNNGC 3 cut(s) 791, 1296, 1753
HpySE526I ACGT 1 cut(s) 387
HspAI GCGC 1 cut(s) 95
KspAI GTTAAC 1 cut(s) 952
Kzo9I GATC 4 cut(s) 453, 667, 1279, 1726
LmnI GCTCC 3 cut(s) 1031, 1806, 1891
Lsp1109I GCAGC 2 cut(s) 820, 1731
LweI GCATC 3 cut(s) 105, 804, 1897
MabI ACCWGGT 1 cut(s) 1587
MaeI CTAG 2 cut(s) 231, 1455
MaeII ACGT 1 cut(s) 387
MaeIII GTNAC 6 cut(s) 238, 383, 844, 1181, 1850, 1858
MalI GATC 4 cut(s) 455, 669, 1281, 1728
MboI GATC 4 cut(s) 453, 667, 1279, 1726
MflI RGATCY 1 cut(s) 1279
MhlI GDGCHC 5 cut(s) 877, 887, 1758, 1788, 1946
MluCI AATT 8 cut(s) 74, 142, 430, 558, 838, 966, 1615, 1627
MmeI TCCRAC 2 cut(s) 119, 298
Mph1103I ATGCAT 1 cut(s) 269
MroXI GAANNNNTTC 2 cut(s) 803, 1214
MseI TTAA 8 cut(s) 270, 620, 638, 951, 965, 1017, 1341, 1790
MslI CAYNNNNRTG 3 cut(s) 870, 1086, 1561
MspA1I CMGCKG 2 cut(s) 581, 1802
MspCI CTTAAG 1 cut(s) 1789
MspI CCGG 3 cut(s) 119, 925, 1560
MspR9I CCNGG 4 cut(s) 1347, 1560, 1561, 1589
MvaI CCWGG 2 cut(s) 1347, 1589
MwoI GCNNNNNNNGC 3 cut(s) 791, 1296, 1753
NciI CCSGG 2 cut(s) 1560, 1561
NcoI CCATGG 1 cut(s) 546
NdeII GATC 4 cut(s) 453, 667, 1279, 1726
NlaIV GGNNCC 2 cut(s) 544, 1027
NmuCI GTSAC 5 cut(s) 383, 844, 1181, 1850, 1858
NsiI ATGCAT 1 cut(s) 269
NspI RCATGY 2 cut(s) 402, 785
NspV TTCGAA 1 cut(s) 1522
OliI CACNNNNGTG 1 cut(s) 1561
PaeI GCATGC 1 cut(s) 785
PagI TCATGA 3 cut(s) 202, 450, 1530
PceI AGGCCT 2 cut(s) 229, 1191
PdmI GAANNNNTTC 2 cut(s) 803, 1214
PfeI GAWTC 7 cut(s) 256, 488, 536, 1442, 1450, 1818, 1828
PflMI CCANNNNNTGG 1 cut(s) 1225
PkrI GCNGC 3 cut(s) 221, 835, 1746
Psp6I CCWGG 2 cut(s) 1345, 1587
PspFI CCCAGC 1 cut(s) 1802
PspGI CCWGG 2 cut(s) 1345, 1587
PspN4I GGNNCC 2 cut(s) 544, 1027
PspPI GGNCC 4 cut(s) 543, 747, 931, 1591
PsuI RGATCY 1 cut(s) 1279
PvuII CAGCTG 2 cut(s) 581, 1802
RsaI GTAC 1 cut(s) 1795
RsaNI GTAC 1 cut(s) 1794
RseI CAYNNNNRTG 3 cut(s) 870, 1086, 1561
SaqAI TTAA 8 cut(s) 270, 620, 638, 951, 965, 1017, 1341, 1790
SatI GCNGC 3 cut(s) 220, 834, 1745
Sau3AI GATC 4 cut(s) 453, 667, 1279, 1726
Sau96I GGNCC 4 cut(s) 543, 747, 931, 1591
ScrFI CCNGG 4 cut(s) 1347, 1560, 1561, 1589
SduI GDGCHC 5 cut(s) 877, 887, 1758, 1788, 1946
SexAI ACCWGGT 1 cut(s) 1587
SfaNI GCATC 3 cut(s) 105, 804, 1897
SfuI TTCGAA 1 cut(s) 1522
SinI GGWCC 3 cut(s) 543, 747, 1591
SmaI CCCGGG 1 cut(s) 1561
SmiMI CAYNNNNRTG 3 cut(s) 870, 1086, 1561
SmlI CTYRAG 2 cut(s) 1488, 1789
SmoI CTYRAG 2 cut(s) 1488, 1789
SphI GCATGC 1 cut(s) 785
Sse9I AATT 8 cut(s) 74, 142, 430, 558, 838, 966, 1615, 1627
SseBI AGGCCT 2 cut(s) 229, 1191
SsiI CCGC 3 cut(s) 219, 278, 750
SspI AATATT 2 cut(s) 379, 1480
SspMI CTAG 2 cut(s) 231, 1455
StuI AGGCCT 2 cut(s) 229, 1191
StyD4I CCNGG 4 cut(s) 1345, 1558, 1559, 1587
StyI CCWWGG 1 cut(s) 546
TaaI ACNGT 2 cut(s) 611, 664
TaiI ACGT 1 cut(s) 390
TaqI TCGA 2 cut(s) 146, 1522
TasI AATT 8 cut(s) 74, 142, 430, 558, 838, 966, 1615, 1627
TatI WGTACW 1 cut(s) 1793
TauI GCSGC 1 cut(s) 222
TfiI GAWTC 7 cut(s) 256, 488, 536, 1442, 1450, 1818, 1828
Tru1I TTAA 8 cut(s) 270, 620, 638, 951, 965, 1017, 1341, 1790
Tru9I TTAA 8 cut(s) 270, 620, 638, 951, 965, 1017, 1341, 1790
TscAI CASTG 7 cut(s) 614, 661, 667, 849, 855, 1381, 1711
TseFI GTSAC 5 cut(s) 383, 844, 1181, 1850, 1858
TseI GCWGC 2 cut(s) 833, 1744
Tsp45I GTSAC 5 cut(s) 383, 844, 1181, 1850, 1858
TspMI CCCGGG 1 cut(s) 1559
TspRI CASTG 7 cut(s) 614, 661, 667, 849, 855, 1381, 1711
Van91I CCANNNNNTGG 1 cut(s) 1225
Vha464I CTTAAG 1 cut(s) 1789
VpaK11BI GGWCC 3 cut(s) 543, 747, 1591
XagI CCTNNNNNAGG 1 cut(s) 560
XapI RAATTY 3 cut(s) 74, 142, 430
XceI RCATGY 2 cut(s) 402, 785
XcmI CCANNNNNNNNNTGG 1 cut(s) 430
XmaI CCCGGG 1 cut(s) 1559
XmnI GAANNNNTTC 2 cut(s) 803, 1214
XspI CTAG 2 cut(s) 231, 1455
Zsp2I ATGCAT 1 cut(s) 269
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.