Rroxscaffold_1G00063400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0013080
Physical Location & Seq
Forward (+)
85285058 .. 85289154
4097 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00063400.1

Sequence Viewer

Length: 1890 bp
ATGAATAGAACCACCAACTTCCTCAAGAAACCTTCCTTCTCTTTGTGTTTCAGCTACCCTTTTTCACATTCCGCTACCCAACCTGTTCACTCTGTGTATGACCTCAGCACCTGCATAGCCTCATTGCAAGCATGTGCTCGCTACAAGAGCCTCAGAAAAGGCAAGCAAATCCATGCCTATATGCTCACGAATGGCTTCCTTTGCTCCCCTCTATCCATAACCAGCCTCATCAACATGTACTCTAAGTGCAACCAAATGGGTGATGCCGTCTCTACCTTTTACTATAAGTTCCATGATCACAATGTGTTTGCTTACAATGCAGTCATTGCTGGGTTCACTGCAAATGGGTTGGCTAGAAATGGATTTGAATTCTATAAAAGAATGCGGTTGGCAGGTGTTGTGCCAGATAAGTTTACGTTTCCATGTGCTATCAGAGCTTGTTGTGGGGTAGTGGAGGTTTTGAAGGTTCATGCCTTGGTGGTTAAACTTGGGTTGGAATTAGATGTATATGTTGGTAGTGCTTTGGTGAATACATATTTGAAATTTGTGTTAGTGGAGGAGGCACAGAAAGTGTTTGAGGAGTTGCCTTCTAGAGATGTTGTGCTTTGGAATGCAATGGTTAATGGGTTTGCACAGATGGGACGTTTTGATGAGGCTTTGGTTGTCTTTAGGATAATGGGTGAGGAAGGGGTTGTGCCTAGTAGATTTACGGTAACTGGGGTCTTGTCAATCTTCGCCATGACGGGAGATTTTGACAATGGGAGAGCAGTGCATGGGTTTGCATTGAAATTGGGGTATGATTCACATTTTGAGGTTTCAAATGCATTGATCGACATGTATGGAAAATGCAAGTTTACAGAAGATGCATTAGATATTTTTGAGATGATGATTGACAAGGATATATATTCTTGGAACTCAATTATAGCAGTGCATGAACAGTGTGGTTATCATGATGAAACTCTCAAGCTTTTGTACAGAATGCTAGGTGCTGGGGTTCTACCTGATCTGGTGACCATCACGATAGTTGTTCCAGCCTGCTCTCATCTAGCAGCGTTGATGTATGGCAGAGAAATCCATGGGTATATGATTAAAAATGAGATTGGGAAGGATGTGAATAAGGAAGATGTTAATGATGTGCAAATGACCAATGCAATCATGGACATGTACACAAAATGTGGGAGCATGAGAAATGCTTATATGGTTTTTGATAAGATGAAAAATAAGGACATAGCGTCGTGGAACATCATGATCATGGGTTATGGCATGCACGGCAATGCTAATGAGGCATTAGATATGTTTTCTTGCATGTGTGAGGCACAGATTGAGGTTGATGAGGTCACATTTGTTGGGGTTTTGTCTGCGTGCAGCCATGCAGGGTTAGTGAGTGAAGGGCGTGAATTATTGAGACAAATGAAGTCAAAATATGGTGTAATTCCAACCATTGAGCATTATACCTGTGTGGTTGACATGCTTGGTCGAGCTGGACATGTGGAGGAGGCATTTGAATTGGTGCAAAACATGCCTATTCAGGCCAATCCTGTGGTGTGGAGGGCATTGTTAGCAGCATGTCGACTCCATAGAAATTCGGATATTGCAAAAGTTGCTGCACAGAAGCTAATGGAACTTGACCCAGGGCACTCTGGTAATTATGTGTTAACGTCCAATATTTTTGTAGATATCGGTCAATATGAAGAGGTATCAGAAGTTAGACATACAATGAGGCAACATAATATCAAGAAGGCACCAGGCTGTAGCTGGACTGAGTTGAAGGATGGTGTGCATGCTTTTATCAATGGTGATAGGGCCCATCCTAAAGCCAACTTTATTTATGCTGAATTGGACTCCTTGACAGCTCGACTTCGTGAGCATGGATATTTACCCCAGCTCTAG

Protein Analysis

629

Amino Acids

70.47

Weight (kDa)

6.29

Isoelectric Point (pI)

33.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 101 - 148 3.5e-09 PPR repeat family
PPR_2 PF13041 198 - 243 7.8e-09 PPR repeat family
PPR PF01535 201 - 231 9.9e-07 PPR repeat
PPR_2 PF13041 299 - 347 2.5e-06 PPR repeat family
PPR_2 PF13041 408 - 456 6.3e-09 PPR repeat family
PPR PF01535 412 - 439 2.3e-06 PPR repeat
E_motif PF20431 526 - 588 4.7e-21 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0013080)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G14730
malus_domestica MD05G1289700.v1.1
prunus_persica Prupe.4G076000_v2.0.a1
pyrus_communis pycom05g26680
rosa_chinensis RchiOBHm_Chr7g0219901
rosa_laevigata RLG00000009523 RLG00000031996
rosa_multiflora Rmu_sc0004521.1_g000007
rosa_roxburghii Rroxscaffold_1G00063400
rosa_rugosa Rorug05G0007900
rosa_samantha Rh4BG067800 Rh4CG075700 Rh5AG101900 Rh5AG102300 Rh5BG098600 Rh5CG110800 Rh5DG097900
rosa_wichuraiana Rw5G008930

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 2 cut(s) 119, 383
Acc36I ACCTGC 2 cut(s) 119, 383
AccB1I GGYRCC 1 cut(s) 1741
AccI GTMKAC 1 cut(s) 1570
AciI CCGC 2 cut(s) 72, 385
AcsI RAATTY 3 cut(s) 368, 542, 1582
AdeI CACNNNGTG 2 cut(s) 94, 304
AfaI GTAC 3 cut(s) 239, 974, 1166
AflIII ACRYGT 4 cut(s) 234, 834, 1161, 1486
AgsI TTSAA 7 cut(s) 368, 463, 541, 787, 819, 1505, 1768
AhdI GACNNNNNGTC 1 cut(s) 1231
AjnI CCWGG 2 cut(s) 1630, 1744
AluBI AGCT 8 cut(s) 54, 437, 967, 1481, 1615, 1755, 1853, 1885
AluI AGCT 8 cut(s) 54, 437, 967, 1481, 1615, 1755, 1853, 1885
Alw21I GWGCWC 1 cut(s) 139
Alw26I GTCTC 2 cut(s) 274, 1399
AlwNI CAGNNNCTG 1 cut(s) 111
AoxI GGCC 2 cut(s) 1530, 1803
ApaI GGGCCC 1 cut(s) 1807
ApeKI GCWGC 4 cut(s) 1049, 1365, 1562, 1604
ApoI RAATTY 3 cut(s) 368, 542, 1582
Asp700I GAANNNNTTC 1 cut(s) 194
AspS9I GGNCC 2 cut(s) 1803, 1804
AsuHPI GGTGA 5 cut(s) 272, 538, 692, 1021, 1808
BaeGI GKGCMC 2 cut(s) 1638, 1807
BanI GGYRCC 1 cut(s) 1741
BanII GRGCYC 1 cut(s) 1807
Bbv12I GWGCWC 1 cut(s) 139
BbvCI CCTCAGC 1 cut(s) 104
BbvI GCAGC 4 cut(s) 1061, 1377, 1574, 1591
BccI CCATC 4 cut(s) 631, 1022, 1766, 1815
BceAI ACGGC 2 cut(s) 251, 1285
BciT130I CCWGG 2 cut(s) 1632, 1746
BclI TGATCA 2 cut(s) 295, 1248
BcoDI GTCTC 2 cut(s) 274, 1399
BfaI CTAG 6 cut(s) 354, 591, 699, 983, 1046, 1888
BfmI CTRYAG 1 cut(s) 1750
BfuAI ACCTGC 2 cut(s) 119, 383
BisI GCNGC 4 cut(s) 1050, 1366, 1563, 1605
BlsI GCNGC 4 cut(s) 1051, 1367, 1564, 1606
Bme1390I CCNGG 2 cut(s) 1632, 1746
BmeRI GACNNNNNGTC 1 cut(s) 1231
BmgT120I GGNCC 2 cut(s) 1803, 1804
BmiI GGNNCC 2 cut(s) 1743, 1805
BmrFI CCNGG 2 cut(s) 1632, 1746
BmrI ACTGGG 1 cut(s) 726
BmsI GCATC 2 cut(s) 253, 853
BmuI ACTGGG 1 cut(s) 726
Bpu10I CCTNAGC 1 cut(s) 104
BpuEI CTTGAG 2 cut(s) 8, 947
BsaJI CCNNGG 4 cut(s) 474, 1075, 1630, 1631
Bse1I ACTGG 1 cut(s) 721
Bse3DI GCAATG 4 cut(s) 122, 324, 621, 1279
BseBI CCWGG 2 cut(s) 1632, 1746
BseDI CCNNGG 4 cut(s) 474, 1075, 1630, 1631
BseGI GGATG 3 cut(s) 1114, 1777, 1807
BseMI GCAATG 4 cut(s) 122, 324, 621, 1279
BseMII CTCAG 3 cut(s) 118, 166, 1752
BseNI ACTGG 1 cut(s) 721
BseRI GAGGAG 3 cut(s) 572, 593, 1508
BseSI GKGCMC 2 cut(s) 1638, 1807
BseXI GCAGC 4 cut(s) 1061, 1377, 1574, 1591
BseYI CCCAGC 3 cut(s) 329, 989, 1881
BsgI GTGCAG 2 cut(s) 1384, 1590
BshFI GGCC 2 cut(s) 1532, 1805
BshNI GGYRCC 1 cut(s) 1741
BsiHKAI GWGCWC 1 cut(s) 139
BslFI GGGAC 1 cut(s) 654
BsmAI GTCTC 2 cut(s) 274, 1399
BsmBI CGTCTC 1 cut(s) 274
BsmFI GGGAC 1 cut(s) 654
BsmI GAATGC 3 cut(s) 387, 616, 984
BsnI GGCC 2 cut(s) 1532, 1805
Bsp120I GGGCCC 1 cut(s) 1803
Bsp1286I GDGCHC 3 cut(s) 139, 1638, 1807
Bsp1407I TGTACA 2 cut(s) 972, 1164
Bsp143I GATC 4 cut(s) 295, 828, 1003, 1248
Bsp19I CCATGG 1 cut(s) 1075
BspACI CCGC 2 cut(s) 72, 385
BspANI GGCC 2 cut(s) 1532, 1805
BspCNI CTCAG 3 cut(s) 117, 165, 1753
BspHI TCATGA 2 cut(s) 949, 1245
BspLI GGNNCC 2 cut(s) 1743, 1805
BspMI ACCTGC 2 cut(s) 119, 383
BspT107I GGYRCC 1 cut(s) 1741
BsrDI GCAATG 4 cut(s) 122, 324, 621, 1279
BsrGI TGTACA 2 cut(s) 972, 1164
BsrI ACTGG 1 cut(s) 721
BssECI CCNNGG 4 cut(s) 474, 1075, 1630, 1631
BssMI GATC 4 cut(s) 295, 828, 1003, 1248
BssT1I CCWWGG 2 cut(s) 474, 1075
Bst2UI CCWGG 2 cut(s) 1632, 1746
Bst4CI ACNGT 2 cut(s) 712, 939
Bst6I CTCTTC 1 cut(s) 1686
BstAPI GCANNNNNTGC 3 cut(s) 326, 1519, 1601
BstAUI TGTACA 2 cut(s) 972, 1164
BstC8I GCNNGC 7 cut(s) 129, 139, 164, 1036, 1265, 1363, 1782
BstDEI CTNAG 4 cut(s) 104, 152, 243, 1761
BstDSI CCRYGG 1 cut(s) 1075
BstEII GGTNACC 1 cut(s) 1009
BstF5I GGATG 3 cut(s) 1114, 1777, 1807
BstKTI GATC 4 cut(s) 298, 831, 1006, 1251
BstMAI GTCTC 2 cut(s) 274, 1399
BstMBI GATC 4 cut(s) 295, 828, 1003, 1248
BstNI CCWGG 2 cut(s) 1632, 1746
BstPI GGTNACC 1 cut(s) 1009
BstSCI CCNGG 2 cut(s) 1630, 1744
BstSFI CTRYAG 1 cut(s) 1750
BstSLI GKGCMC 2 cut(s) 1638, 1807
BstV1I GCAGC 4 cut(s) 1061, 1377, 1574, 1591
BstXI CCANNNNNNTGG 1 cut(s) 1540
BsuRI GGCC 2 cut(s) 1532, 1805
BtgI CCRYGG 1 cut(s) 1075
BtsCI GGATG 3 cut(s) 1114, 1777, 1807
BtsI GCAGTG 3 cut(s) 336, 774, 933
BtsIMutI CAGTG 4 cut(s) 336, 774, 933, 944
BveI ACCTGC 2 cut(s) 119, 383
Cac8I GCNNGC 7 cut(s) 129, 139, 164, 1036, 1265, 1363, 1782
CaiI CAGNNNCTG 1 cut(s) 111
CciI TCATGA 2 cut(s) 949, 1245
Cfr13I GGNCC 2 cut(s) 1803, 1804
CseI GACGC 1 cut(s) 1221
Csp6I GTAC 3 cut(s) 238, 973, 1165
CviQI GTAC 3 cut(s) 238, 973, 1165
DdeI CTNAG 4 cut(s) 104, 152, 243, 1761
DpnI GATC 4 cut(s) 297, 830, 1005, 1250
DpnII GATC 4 cut(s) 295, 828, 1003, 1248
DraIII CACNNNGTG 2 cut(s) 94, 304
DriI GACNNNNNGTC 1 cut(s) 1231
Eam1104I CTCTTC 1 cut(s) 1686
Eam1105I GACNNNNNGTC 1 cut(s) 1231
EarI CTCTTC 1 cut(s) 1686
Eco130I CCWWGG 2 cut(s) 474, 1075
Eco24I GRGCYC 1 cut(s) 1807
Eco32I GATATC 1 cut(s) 1678
Eco91I GGTNACC 1 cut(s) 1009
EcoO109I RGGNCCY 1 cut(s) 1803
EcoO65I GGTNACC 1 cut(s) 1009
EcoRI GAATTC 1 cut(s) 368
EcoRII CCWGG 2 cut(s) 1630, 1744
EcoRV GATATC 1 cut(s) 1678
EcoT14I CCWWGG 2 cut(s) 474, 1075
EcoT22I ATGCAT 2 cut(s) 826, 868
EcoT38I GRGCYC 1 cut(s) 1807
ErhI CCWWGG 2 cut(s) 474, 1075
Esp3I CGTCTC 1 cut(s) 274
FaqI GGGAC 1 cut(s) 654
FbaI TGATCA 2 cut(s) 295, 1248
FblI GTMKAC 1 cut(s) 1570
Fnu4HI GCNGC 4 cut(s) 1050, 1366, 1563, 1605
FokI GGATG 3 cut(s) 1121, 1784, 1794
FriOI GRGCYC 1 cut(s) 1807
Fsp4HI GCNGC 4 cut(s) 1050, 1366, 1563, 1605
FspBI CTAG 6 cut(s) 354, 591, 699, 983, 1046, 1888
GluI GCNGC 4 cut(s) 1050, 1366, 1563, 1605
GsaI CCCAGC 3 cut(s) 333, 993, 1885
HaeIII GGCC 2 cut(s) 1532, 1805
HgaI GACGC 1 cut(s) 1221
HincII GTYRAC 3 cut(s) 1465, 1571, 1656
HindII GTYRAC 3 cut(s) 1465, 1571, 1656
HindIII AAGCTT 1 cut(s) 965
HinfI GANTC 3 cut(s) 800, 1572, 1841
HpaI GTTAAC 1 cut(s) 1656
HphI GGTGA 5 cut(s) 272, 538, 692, 1021, 1808
Hpy166II GTNNAC 8 cut(s) 88, 336, 414, 855, 1167, 1465, 1571, 1656
Hpy188I TCNGA 4 cut(s) 155, 434, 1588, 1702
Hpy188III TCNNGA 8 cut(s) 25, 187, 591, 950, 1018, 1246, 1735, 1862
Hpy8I GTNNAC 8 cut(s) 88, 336, 414, 855, 1167, 1465, 1571, 1656
Hpy99I CGWCG 1 cut(s) 1237
HpyAV CCTTC 9 cut(s) 42, 46, 457, 597, 680, 1099, 1382, 1732, 1762
HpyCH4III ACNGT 2 cut(s) 712, 939
HpyCH4IV ACGT 3 cut(s) 416, 643, 1658
HpyF3I CTNAG 4 cut(s) 104, 152, 243, 1761
HpySE526I ACGT 3 cut(s) 416, 643, 1658
Ksp22I TGATCA 2 cut(s) 295, 1248
KspAI GTTAAC 1 cut(s) 1656
Kzo9I GATC 4 cut(s) 295, 828, 1003, 1248
LmnI GCTCC 2 cut(s) 209, 1179
Lsp1109I GCAGC 4 cut(s) 1061, 1377, 1574, 1591
LweI GCATC 2 cut(s) 253, 853
MaeI CTAG 6 cut(s) 354, 591, 699, 983, 1046, 1888
MaeII ACGT 3 cut(s) 416, 643, 1658
MaeIII GTNAC 3 cut(s) 712, 1009, 1336
MalI GATC 4 cut(s) 297, 830, 1005, 1250
MboI GATC 4 cut(s) 295, 828, 1003, 1248
MboII GAAGA 4 cut(s) 724, 872, 1133, 1703
MhlI GDGCHC 3 cut(s) 139, 1638, 1807
MlyI GAGTC 2 cut(s) 1566, 1835
MmeI TCCRAC 2 cut(s) 474, 1460
Mph1103I ATGCAT 2 cut(s) 826, 868
MroXI GAANNNNTTC 1 cut(s) 194
MseI TTAA 5 cut(s) 483, 621, 1089, 1128, 1655
MslI CAYNNNNRTG 4 cut(s) 233, 1160, 1250, 1272
MspR9I CCNGG 2 cut(s) 1632, 1746
Mva1269I GAATGC 3 cut(s) 387, 616, 984
MvaI CCWGG 2 cut(s) 1632, 1746
NcoI CCATGG 1 cut(s) 1075
NdeII GATC 4 cut(s) 295, 828, 1003, 1248
NlaIV GGNNCC 2 cut(s) 1743, 1805
NmuCI GTSAC 2 cut(s) 1009, 1336
NsiI ATGCAT 2 cut(s) 826, 868
PaeI GCATGC 2 cut(s) 1267, 1784
PagI TCATGA 2 cut(s) 949, 1245
PaqCI CACCTGC 2 cut(s) 119, 383
PasI CCCWGGG 1 cut(s) 1631
PciI ACATGT 4 cut(s) 234, 834, 1161, 1486
PctI GAATGC 3 cut(s) 387, 616, 984
PdmI GAANNNNTTC 1 cut(s) 194
PfeI GAWTC 1 cut(s) 800
PkrI GCNGC 4 cut(s) 1051, 1367, 1564, 1606
PleI GAGTC 2 cut(s) 1566, 1835
PpsI GAGTC 2 cut(s) 1566, 1835
PscI ACATGT 4 cut(s) 234, 834, 1161, 1486
Psp6I CCWGG 2 cut(s) 1630, 1744
PspEI GGTNACC 1 cut(s) 1009
PspFI CCCAGC 3 cut(s) 329, 989, 1881
PspGI CCWGG 2 cut(s) 1630, 1744
PspN4I GGNNCC 2 cut(s) 1743, 1805
PspOMI GGGCCC 1 cut(s) 1803
PspPI GGNCC 2 cut(s) 1803, 1804
PstNI CAGNNNCTG 1 cut(s) 111
RsaI GTAC 3 cut(s) 239, 974, 1166
RsaNI GTAC 3 cut(s) 238, 973, 1165
RseI CAYNNNNRTG 4 cut(s) 233, 1160, 1250, 1272
SalI GTCGAC 1 cut(s) 1569
SaqAI TTAA 5 cut(s) 483, 621, 1089, 1128, 1655
SatI GCNGC 4 cut(s) 1050, 1366, 1563, 1605
Sau3AI GATC 4 cut(s) 295, 828, 1003, 1248
Sau96I GGNCC 2 cut(s) 1803, 1804
SchI GAGTC 2 cut(s) 1566, 1835
ScrFI CCNGG 2 cut(s) 1632, 1746
SduI GDGCHC 3 cut(s) 139, 1638, 1807
SfaNI GCATC 2 cut(s) 253, 853
SfcI CTRYAG 1 cut(s) 1750
SmiMI CAYNNNNRTG 4 cut(s) 233, 1160, 1250, 1272
SmlI CTYRAG 2 cut(s) 23, 962
SmoI CTYRAG 2 cut(s) 23, 962
SphI GCATGC 2 cut(s) 1267, 1784
SsiI CCGC 2 cut(s) 72, 385
SspI AATATT 1 cut(s) 1666
SspMI CTAG 6 cut(s) 354, 591, 699, 983, 1046, 1888
StyD4I CCNGG 2 cut(s) 1630, 1744
StyI CCWWGG 2 cut(s) 474, 1075
TaaI ACNGT 2 cut(s) 712, 939
TaiI ACGT 3 cut(s) 419, 646, 1661
TaqI TCGA 4 cut(s) 831, 1477, 1570, 1855
TaqII GACCGA 1 cut(s) 1670
TatI WGTACW 3 cut(s) 237, 972, 1164
TfiI GAWTC 1 cut(s) 800
Tru1I TTAA 5 cut(s) 483, 621, 1089, 1128, 1655
Tru9I TTAA 5 cut(s) 483, 621, 1089, 1128, 1655
TscAI CASTG 4 cut(s) 343, 774, 933, 944
TseFI GTSAC 2 cut(s) 1009, 1336
TseI GCWGC 4 cut(s) 1049, 1365, 1562, 1604
Tsp45I GTSAC 2 cut(s) 1009, 1336
TspDTI ATGAA 7 cut(s) 17, 458, 948, 969, 1229, 1427, 1704
TspRI CASTG 4 cut(s) 343, 774, 933, 944
XapI RAATTY 3 cut(s) 368, 542, 1582
XbaI TCTAGA 1 cut(s) 590
XcmI CCANNNNNNNNNTGG 2 cut(s) 1153, 1752
XmiI GTMKAC 1 cut(s) 1570
XmnI GAANNNNTTC 1 cut(s) 194
XspI CTAG 6 cut(s) 354, 591, 699, 983, 1046, 1888
Zsp2I ATGCAT 2 cut(s) 826, 868
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.