Rh2AG644000

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2A
OG0015439
Physical Location & Seq
Forward (+)
86572947 .. 86577379
4433 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2AG644000.1

Sequence Viewer

Length: 1893 bp
ATGAATCGAGCTTCACGCTACTCTCCCTGTCAAACCCAAAACCCATTCTTTAACATCTGTTTCATACTAAAAATCTCAACTCTCTCTTCTTCTTCTTCTTCTCTACAGATCATCCCAGACTCTCCCTCCACATCAATCTCAAACCCCCTTTACCATTTTCTCCCCCAAACCCAAAACCCCAACAACATAGTCAATCTCATCTGCTCAGCCCTCAAGCAACCACAGACCCACCACCATCTTTCCCATCTCCAAAACCACCTCAAACCCCTTCTTCCCCATCTGGGTGGTCAACAAATCTCAAGGGTTCTCCTCAGGTTCCAATCTGATCACTCCTCAGCTCTTGTTTTCTTCAACTGGGTCAAGCATGGTTTGGGCCTCCGACCCACCACCCAGAACTATTGCATTGCTCTTCATATATTAGCTTGCTCTAAAAAGTTTCCCCAGGCTATGAAATTGTTGTGTGAATTGATAGAGCTGGTTAGGGATGTGGGTGCGTCATCCAAAGATGACATTTTTCATAGTTTGGTTGTTTGTGCTCAAGATTGTAACTGGGATCCAGTTATCTTTGACATGCTCGTTAAGGCTTATGTGAAAGCAGGTATGATTAGAGATGGTTTTATCAGTTTTAAGAAGACACTAGAATTCGGATTTGTTCCGAGTGTGATTGCTTGCAATTGTCTTATGAATGGATTGGTGAGGTTGAATTGTTTGGATCAGTGCTGGGAGGTGTATGAGGATATGGGAAGGATTGGTGTACACCCAAATGTGTATACTTTTAATATTTTGACTAATGTTTTGTGCAAGGATGGAGATGTTGCGAAAGTGAATGCTTTTTTGGATAGAATGGAAGAAGAAGGATTTGATCCCGATATCGTGACTTATAATACTCTGATTAGTAGCTATTGTAGGAAAGGAAGGTTGGGAGATGCGTTTTATTTGTATAAGATCATGTTTAGGAGGGGTGTGATGCCGGATTTAGTGTCGTACACTGCCTTGATGCACGGTCTTTGTAAACAAGGGAATGTGAGGGAGGCTCATCAGCTTTTTCATCGGATGGTTCATAGAGGGTTGTATCCAGACATTGTGTCGTATAACACTCTTATTGGTGGTTATTGCAATGAGGGGAGGATGCCAGAGTGTAAGTCATTGTTGTATGAGATGATAAAAAATGGTCTTCGTCCAGATGATTTCACTTGTAGGATGGTCACAGAAGGATATGGCAAAGAAGGCAAGTTGCTCTCTGCACTGAATTTGGTAGTGGAGCTTCAACGATTTCAAGTGTCTATTTCTCGTCGCATTTATGATTATCTAATAGTTGCATTGTGTCAAGAAAATCGGCCGTTTGCAGCTAAAAGTCTATTAGAAAGAAGTTATCAAGATGGTTATTTGCCTGATTTGGATATCTATAACAAATTGATGGAGTCCCTCTGCCAGAGCAATAATGTGACTGAGGCGAAGGTTTTGAAAGCCGAGATGGTTTGTAAGAACATCAAACCCAATCTTTTCACATATAAAGCTCTAATATGCTGTCTATGTCGTATAAACAGAACAGTGGAAGGTGAGTCGTTACTGAAAGAGATGGTTGAATCTGGTTTGCTGCCAGATTCAGAAATATGCAGGTCATTGATAAAGGGTTACTGCAAAGAAAGGGATGTTGCTAAAGCAGAATCATTGTTAAGGTTCTTTGCCAAAGAATTTCAAGTTTTTGATTCTGAAAGTTACAATGAACTTGTCAAAATTTTCTGTCAGGATAGTGATATGGGTAAGTTGTTGAAGTTACAAGATAGAATGATGAAAGTGGGTTTTGCACCAAATAGCCTTACACTCAAGTATGCCATCCATGGATTATGGAAAACTACCAGACCAGAGAAAGATAATCTTCTTCTGGAATAA

Protein Analysis

630

Amino Acids

71.85

Weight (kDa)

8.41

Isoelectric Point (pI)

39.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 219 - 268 4e-14 PPR repeat family
PPR_long PF17177 235 - 332 4.9e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 243 - 301 3.6e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 251 - 283 1e-06 PPR repeat
PPR_2 PF13041 264 - 298 1.8e-06 PPR repeat family
PPR_1 PF12854 286 - 317 2.8e-12 PPR repeat
PPR_2 PF13041 289 - 338 8.6e-19 PPR repeat family
PPR PF01535 292 - 322 3.8e-08 PPR repeat
PPR_3 PF13812 317 - 373 9.9e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 320 - 353 2.6e-11 PPR repeat
PPR_2 PF13041 324 - 362 2.2e-11 PPR repeat family
PPR PF01535 327 - 357 2.4e-08 PPR repeat
PPR_1 PF12854 355 - 387 6.3e-08 PPR repeat
PPR_2 PF13041 359 - 406 8.8e-13 PPR repeat family
PPR PF01535 362 - 392 7.8e-09 PPR repeat
PPR_2 PF13041 464 - 513 1.9e-11 PPR repeat family
PPR_1 PF12854 495 - 528 7e-07 PPR repeat
PPR_2 PF13041 502 - 548 1.4e-06 PPR repeat family
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: OG0015439)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G40400 AT5G40400
fragaria_vesca FvH4_5g31860
malus_domestica MD09G1028300.v1.1
prunus_persica Prupe.3G290200_v2.0.a1
pyrus_communis pycom111g02230
rosa_chinensis RchiOBHm_Chr2g0173011
rosa_laevigata RLG00000022149
rosa_multiflora Rmu_sc0012743.1_g000003
rosa_roxburghii Rroxscaffold_2G00079320
rosa_samantha Rh2AG641500 Rh2AG644000 Rh2BG654800 Rh2CG620200 Rh2DG668400
rosa_wichuraiana Rw2G052920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 882
Acc36I ACCTGC 2 cut(s) 587, 1608
AccI GTMKAC 1 cut(s) 770
AclWI GGATC 4 cut(s) 548, 561, 720, 857
AcoI YGGCCR 1 cut(s) 1337
AcsI RAATTY 4 cut(s) 641, 1249, 1694, 1737
AfaI GTAC 2 cut(s) 756, 986
AfiI CCNNNNNNNGG 1 cut(s) 281
AgsI TTSAA 8 cut(s) 352, 703, 1268, 1277, 1465, 1586, 1700, 1774
AhdI GACNNNNNGTC 1 cut(s) 1084
AjnI CCWGG 1 cut(s) 441
AjuI GAANNNNNNNTTGG 4 cut(s) 818, 850, 902, 934
AluBI AGCT 9 cut(s) 11, 338, 422, 475, 900, 1042, 1264, 1349, 1517
AluI AGCT 9 cut(s) 11, 338, 422, 475, 900, 1042, 1264, 1349, 1517
Alw21I GWGCWC 1 cut(s) 538
AlwI GGATC 4 cut(s) 548, 561, 720, 857
AoxI GGCC 2 cut(s) 373, 1337
ApeKI GCWGC 2 cut(s) 1346, 1597
ApoI RAATTY 4 cut(s) 641, 1249, 1694, 1737
ArsI GACNNNNNNTTYG 2 cut(s) 778, 810
AspS9I GGNCC 1 cut(s) 373
AsuHPI GGTGA 2 cut(s) 706, 1571
AxyI CCTNAGG 1 cut(s) 311
BamHI GGATCC 1 cut(s) 553
BarI GAAGNNNNNNTAC 2 cut(s) 1248, 1280
BbsI GAAGAC 2 cut(s) 638, 1166
Bbv12I GWGCWC 1 cut(s) 538
BbvCI CCTCAGC 1 cut(s) 334
BbvI GCAGC 2 cut(s) 1358, 1584
BceAI ACGGC 1 cut(s) 1324
BciT130I CCWGG 1 cut(s) 443
BciVI GTATCC 1 cut(s) 1083
BclI TGATCA 1 cut(s) 325
BfaI CTAG 1 cut(s) 638
BfmI CTRYAG 1 cut(s) 104
BfuAI ACCTGC 2 cut(s) 587, 1608
BfuI GTATCC 1 cut(s) 1083
BisI GCNGC 2 cut(s) 1347, 1598
BlpI GCTNAGC 1 cut(s) 205
BlsI GCNGC 2 cut(s) 1348, 1599
Bme1390I CCNGG 1 cut(s) 443
BmeRI GACNNNNNGTC 1 cut(s) 1084
BmgT120I GGNCC 1 cut(s) 373
BmiI GGNNCC 2 cut(s) 317, 555
BmrFI CCNGG 1 cut(s) 443
BmrI ACTGGG 2 cut(s) 364, 559
BmsI GCATC 4 cut(s) 916, 957, 987, 1119
BmuI ACTGGG 2 cut(s) 364, 559
BpiI GAAGAC 2 cut(s) 638, 1166
BplI GAGNNNNNCTC 2 cut(s) 1018, 1050
Bpu10I CCTNAGC 1 cut(s) 334
Bpu1102I GCTNAGC 1 cut(s) 205
BpuEI CTTGAG 4 cut(s) 197, 283, 522, 1811
BsaJI CCNNGG 2 cut(s) 441, 1840
BsaXI ACNNNNNCTCC 2 cut(s) 110, 140
Bsc4I CCNNNNNNNGG 1 cut(s) 281
Bse1I ACTGG 3 cut(s) 359, 554, 557
Bse21I CCTNAGG 1 cut(s) 311
Bse3DI GCAATG 2 cut(s) 402, 1123
BseBI CCWGG 1 cut(s) 443
BseDI CCNNGG 2 cut(s) 441, 1840
BseGI GGATG 9 cut(s) 111, 490, 497, 811, 1059, 1134, 1206, 1657, 1836
BseLI CCNNNNNNNGG 1 cut(s) 281
BseMI GCAATG 2 cut(s) 402, 1123
BseMII CTCAG 4 cut(s) 219, 325, 348, 1440
BseNI ACTGG 3 cut(s) 359, 554, 557
BseRI GAGGAG 2 cut(s) 299, 322
BseX3I CGGCCG 1 cut(s) 1337
BseXI GCAGC 2 cut(s) 1358, 1584
BseYI CCCAGC 1 cut(s) 720
BsgI GTGCAG 1 cut(s) 1227
Bsh1285I CGRYCG 1 cut(s) 1340
BshFI GGCC 2 cut(s) 375, 1339
BsiEI CGRYCG 1 cut(s) 1340
BsiHKAI GWGCWC 1 cut(s) 538
BsiSI CCGG 1 cut(s) 971
BslFI GGGAC 1 cut(s) 1408
BslI CCNNNNNNNGG 1 cut(s) 281
BsmFI GGGAC 1 cut(s) 1408
BsmI GAATGC 1 cut(s) 832
BsnI GGCC 2 cut(s) 375, 1339
Bsp1286I GDGCHC 1 cut(s) 538
Bsp1407I TGTACA 1 cut(s) 754
Bsp143I GATC 6 cut(s) 108, 325, 553, 712, 862, 945
Bsp1720I GCTNAGC 1 cut(s) 205
Bsp19I CCATGG 1 cut(s) 1840
BspANI GGCC 2 cut(s) 375, 1339
BspCNI CTCAG 4 cut(s) 218, 324, 347, 1441
BspLI GGNNCC 2 cut(s) 317, 555
BspMI ACCTGC 2 cut(s) 587, 1608
BspPI GGATC 4 cut(s) 548, 561, 720, 857
BspQI GCTCTTC 1 cut(s) 414
BsrDI GCAATG 2 cut(s) 402, 1123
BsrGI TGTACA 1 cut(s) 754
BsrI ACTGG 3 cut(s) 359, 554, 557
BssECI CCNNGG 2 cut(s) 441, 1840
BssMI GATC 6 cut(s) 108, 325, 553, 712, 862, 945
BssNAI GTATAC 1 cut(s) 771
BssT1I CCWWGG 1 cut(s) 1840
Bst1107I GTATAC 1 cut(s) 771
Bst2UI CCWGG 1 cut(s) 443
Bst4CI ACNGT 2 cut(s) 1004, 1552
Bst6I CTCTTC 2 cut(s) 91, 414
BstAUI TGTACA 1 cut(s) 754
BstC8I GCNNGC 2 cut(s) 424, 670
BstDEI CTNAG 4 cut(s) 205, 311, 334, 1449
BstDSI CCRYGG 1 cut(s) 1840
BstF5I GGATG 9 cut(s) 111, 490, 497, 811, 1059, 1134, 1206, 1657, 1836
BstKTI GATC 6 cut(s) 111, 328, 556, 715, 865, 948
BstMBI GATC 6 cut(s) 108, 325, 553, 712, 862, 945
BstMCI CGRYCG 1 cut(s) 1340
BstMWI GCNNNNNNNGC 1 cut(s) 1227
BstNI CCWGG 1 cut(s) 443
BstNSI RCATGY 1 cut(s) 574
BstSCI CCNGG 1 cut(s) 441
BstSFI CTRYAG 1 cut(s) 104
BstV1I GCAGC 2 cut(s) 1358, 1584
BstV2I GAAGAC 2 cut(s) 638, 1166
BstX2I RGATCY 1 cut(s) 553
BstXI CCANNNNNNTGG 1 cut(s) 284
BstYI RGATCY 1 cut(s) 553
BstZ17I GTATAC 1 cut(s) 771
BstZI CGGCCG 1 cut(s) 1337
Bsu36I CCTNAGG 1 cut(s) 311
BsuI GTATCC 1 cut(s) 1083
BsuRI GGCC 2 cut(s) 375, 1339
BtgI CCRYGG 1 cut(s) 1840
BtsCI GGATG 9 cut(s) 111, 490, 497, 811, 1059, 1134, 1206, 1657, 1836
BtsI GCAGTG 1 cut(s) 987
BtsIMutI CAGTG 4 cut(s) 722, 987, 1244, 1557
BveI ACCTGC 2 cut(s) 587, 1608
Cac8I GCNNGC 2 cut(s) 424, 670
Cfr13I GGNCC 1 cut(s) 373
CseI GACGC 1 cut(s) 483
Csp6I GTAC 2 cut(s) 755, 985
CviAII CATG 4 cut(s) 365, 571, 949, 1841
CviQI GTAC 2 cut(s) 755, 985
DdeI CTNAG 4 cut(s) 205, 311, 334, 1449
DpnI GATC 6 cut(s) 110, 327, 555, 714, 864, 947
DpnII GATC 6 cut(s) 108, 325, 553, 712, 862, 945
DriI GACNNNNNGTC 1 cut(s) 1084
EaeI YGGCCR 1 cut(s) 1337
EagI CGGCCG 1 cut(s) 1337
Eam1104I CTCTTC 2 cut(s) 91, 414
Eam1105I GACNNNNNGTC 1 cut(s) 1084
EarI CTCTTC 2 cut(s) 91, 414
EclXI CGGCCG 1 cut(s) 1337
Eco130I CCWWGG 1 cut(s) 1840
Eco32I GATATC 2 cut(s) 871, 1402
Eco52I CGGCCG 1 cut(s) 1337
Eco81I CCTNAGG 1 cut(s) 311
EcoRI GAATTC 1 cut(s) 641
EcoRII CCWGG 1 cut(s) 441
EcoRV GATATC 2 cut(s) 871, 1402
EcoT14I CCWWGG 1 cut(s) 1840
ErhI CCWWGG 1 cut(s) 1840
FaeI CATG 4 cut(s) 368, 574, 952, 1844
FalI AAGNNNNNCTT 1 cut(s) 1863
FaqI GGGAC 1 cut(s) 1408
FatI CATG 4 cut(s) 364, 570, 948, 1840
FbaI TGATCA 1 cut(s) 325
FblI GTMKAC 1 cut(s) 770
Fnu4HI GCNGC 2 cut(s) 1347, 1598
FokI GGATG 9 cut(s) 98, 484, 497, 818, 1066, 1141, 1213, 1664, 1823
Fsp4HI GCNGC 2 cut(s) 1347, 1598
FspBI CTAG 1 cut(s) 638
GluI GCNGC 2 cut(s) 1347, 1598
GsaI CCCAGC 1 cut(s) 724
HaeIII GGCC 2 cut(s) 375, 1339
HapII CCGG 1 cut(s) 971
HgaI GACGC 1 cut(s) 483
Hin1II CATG 4 cut(s) 368, 574, 952, 1844
HincII GTYRAC 1 cut(s) 290
HindII GTYRAC 1 cut(s) 290
HinfI GANTC 8 cut(s) 4, 119, 1421, 1562, 1586, 1604, 1667, 1709
HpaII CCGG 1 cut(s) 971
HphI GGTGA 2 cut(s) 706, 1571
Hpy166II GTNNAC 6 cut(s) 290, 755, 757, 771, 987, 1013
Hpy188I TCNGA 8 cut(s) 325, 380, 647, 657, 891, 1053, 1609, 1714
Hpy188III TCNNGA 9 cut(s) 539, 866, 874, 1076, 1181, 1328, 1376, 1748, 1886
Hpy8I GTNNAC 6 cut(s) 290, 755, 757, 771, 987, 1013
Hpy99I CGWCG 1 cut(s) 1296
HpyAV CCTTC 8 cut(s) 278, 738, 848, 909, 1205, 1220, 1450, 1550
HpyCH4III ACNGT 2 cut(s) 1004, 1552
HpyF10VI GCNNNNNNNGC 1 cut(s) 1227
HpyF3I CTNAG 4 cut(s) 205, 311, 334, 1449
Hsp92II CATG 4 cut(s) 368, 574, 952, 1844
Ksp22I TGATCA 1 cut(s) 325
Kzo9I GATC 6 cut(s) 108, 325, 553, 712, 862, 945
LguI GCTCTTC 1 cut(s) 414
LmnI GCTCC 1 cut(s) 1261
Lsp1109I GCAGC 2 cut(s) 1358, 1584
LweI GCATC 4 cut(s) 916, 957, 987, 1119
MaeI CTAG 1 cut(s) 638
MaeIII GTNAC 8 cut(s) 545, 874, 1204, 1444, 1566, 1634, 1718, 1776
MalI GATC 6 cut(s) 110, 327, 555, 714, 864, 947
MboI GATC 6 cut(s) 108, 325, 553, 712, 862, 945
MfeI CAATTG 1 cut(s) 673
MflI RGATCY 1 cut(s) 553
MhlI GDGCHC 1 cut(s) 538
MluCI AATT 9 cut(s) 452, 464, 641, 673, 703, 1249, 1412, 1694, 1737
MlyI GAGTC 3 cut(s) 113, 1430, 1571
MmeI TCCRAC 1 cut(s) 403
MseI TTAA 5 cut(s) 51, 579, 627, 777, 1676
MslI CAYNNNNRTG 2 cut(s) 282, 762
MspI CCGG 1 cut(s) 971
MspR9I CCNGG 1 cut(s) 443
MunI CAATTG 1 cut(s) 673
Mva1269I GAATGC 1 cut(s) 832
MvaI CCWGG 1 cut(s) 443
MwoI GCNNNNNNNGC 1 cut(s) 1227
NcoI CCATGG 1 cut(s) 1840
NdeII GATC 6 cut(s) 108, 325, 553, 712, 862, 945
NlaIII CATG 4 cut(s) 368, 574, 952, 1844
NlaIV GGNNCC 2 cut(s) 317, 555
NmeAIII GCCGAG 1 cut(s) 1495
NmuCI GTSAC 3 cut(s) 874, 1204, 1444
NspI RCATGY 1 cut(s) 574
PciSI GCTCTTC 1 cut(s) 414
PctI GAATGC 1 cut(s) 832
PfeI GAWTC 5 cut(s) 4, 1586, 1604, 1667, 1709
PkrI GCNGC 2 cut(s) 1348, 1599
PleI GAGTC 3 cut(s) 113, 1429, 1570
PpsI GAGTC 3 cut(s) 113, 1429, 1570
PsiI TTATAA 1 cut(s) 882
Psp6I CCWGG 1 cut(s) 441
PspFI CCCAGC 1 cut(s) 720
PspGI CCWGG 1 cut(s) 441
PspN4I GGNNCC 2 cut(s) 317, 555
PspPI GGNCC 1 cut(s) 373
PsuI RGATCY 1 cut(s) 553
RsaI GTAC 2 cut(s) 756, 986
RsaNI GTAC 2 cut(s) 755, 985
RseI CAYNNNNRTG 2 cut(s) 282, 762
SapI GCTCTTC 1 cut(s) 414
SaqAI TTAA 5 cut(s) 51, 579, 627, 777, 1676
SatI GCNGC 2 cut(s) 1347, 1598
Sau3AI GATC 6 cut(s) 108, 325, 553, 712, 862, 945
Sau96I GGNCC 1 cut(s) 373
SchI GAGTC 3 cut(s) 113, 1430, 1571
ScrFI CCNGG 1 cut(s) 443
SduI GDGCHC 1 cut(s) 538
SfaNI GCATC 4 cut(s) 916, 957, 987, 1119
SfcI CTRYAG 1 cut(s) 104
SmiMI CAYNNNNRTG 2 cut(s) 282, 762
SmlI CTYRAG 4 cut(s) 212, 298, 537, 1826
SmoI CTYRAG 4 cut(s) 212, 298, 537, 1826
Sse9I AATT 9 cut(s) 452, 464, 641, 673, 703, 1249, 1412, 1694, 1737
SspI AATATT 1 cut(s) 781
SspMI CTAG 1 cut(s) 638
StyD4I CCNGG 1 cut(s) 441
StyI CCWWGG 1 cut(s) 1840
TaaI ACNGT 2 cut(s) 1004, 1552
TaqI TCGA 1 cut(s) 7
TasI AATT 9 cut(s) 452, 464, 641, 673, 703, 1249, 1412, 1694, 1737
TatI WGTACW 1 cut(s) 754
TfiI GAWTC 5 cut(s) 4, 1586, 1604, 1667, 1709
Tru1I TTAA 5 cut(s) 51, 579, 627, 777, 1676
Tru9I TTAA 5 cut(s) 51, 579, 627, 777, 1676
TscAI CASTG 4 cut(s) 722, 994, 1251, 1557
TseFI GTSAC 3 cut(s) 874, 1204, 1444
TseI GCWGC 2 cut(s) 1346, 1597
Tsp45I GTSAC 3 cut(s) 874, 1204, 1444
TspRI CASTG 4 cut(s) 722, 994, 1251, 1557
XapI RAATTY 4 cut(s) 641, 1249, 1694, 1737
XceI RCATGY 1 cut(s) 574
XmiI GTMKAC 1 cut(s) 770
XspI CTAG 1 cut(s) 638
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.