Rw1G038520

Polypyrimidine tract-binding protein homolog

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
Physical Location & Seq
Forward (+)
66018630 .. 66022225
3596 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G038520.1

Sequence Viewer

Length: 1284 bp
ATGGCTTCTGTGTCCAGTCAGCCACAGTTCCGCTACACTCAGCCACCATCCAAGGTGCTCCATTTGAGGAACTTGCCGTGGGAGTGTACAGAGGAGGAATTGATTGAGCTGGGAAAGCCATTTGGTCAAGTTGTGAACACAAAGTGCAACGTCGGAGCAAACCGCAATCAGGCTTTTATTGAATTTGCAGAGTTAAATCAAGCTATTACGATGATATCGTATTATGCCTCATCGTCAGAACCTGCTCAAGTAAGGGGGAAAACTGTCTACCTACAGTACTCCAATAGGCAAGAAATAGTGAACAACAAAACTGCTGCAGATGTTGCCGGAAATGTACTCTTGGTAACAATTGAAGGTGCAGATGCACGGCTTGTCAGTATAGATGTTTTACACCTGGTATTTTCAGCTTTTGGATTTGTGCACAAGATAACTACTTTTGAGAAGACAGCAGGATTCCAGGCACTGATCCAATTTTCAGATGCACAAATTGCCACTGATGCAAAAAATTCACTGGATGGAAGAAACATCCCTAGCTATCTGCTCCCTGATCATCTGGGACCTTGTAGTCTCAGGATAACATATTCTGGACACACAGATTTGAGTGTGAAATTTCAGAGTCACCGAAGCAGGGACTACACTAATCCTTACCTTCCTGTTGCTCCATCAGCCATAGATGGAAATGGTCAGATAAGTGTGGGCTTGGATGGTAAAAAGCAAGAACCTGAGAGTAACGTTCTTCTTGCATCCATCGAGAACATGCAGTATGCCGTCACCTTGGACGTTCTGCACATGGTCTTCTCTGCTTTTGGGCCTGTCCAAAAGATCGCCATGTTTGATAAGAACGGGGGAGTTCAGGCTTTGATTCAGTATCCCGACAGCTGTTGTTGCAAGGAAGCCTTGGAGGGGCATTGTATTTATGATGGAGGGTTTTGCAAGCTCCACATCTCATATTCACGTCATACTGATCTCAGCATAAAGGTCAATAATGATAGGAGCAGAGACTATACAATTCCTAACATTCCAATGGTGAACTCACAACCCTCGATTCTGGGGCAACAGCCAGTTAACATGATGAGTCCGGCTGCTCCTCAATACGGTGGTGCTCAATTTGCTCCTACAGGTCAGGGGATGATGCCTCAACCTTCAGCAGGGTGGGGACCTACAATGCCGAATCAACCTTACATGCCATCTGGAACAGTACCCTCCCAAATGGGTCCTGGCATGATGCCGGGTGGTGCGCAGCAGCCGAATTTGCCCCCATATCACAATGGTCATGTGCAATAG

Protein Analysis

427

Amino Acids

46.57

Weight (kDa)

6.17

Isoelectric Point (pI)

54.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 22 - 71 6.7e-07 RNA recognition motif
RRM_8 PF11835 243 - 318 5e-06 RRM-like domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 564
Acc16I TGCGCA 1 cut(s) 1239
Acc36I ACCTGC 1 cut(s) 250
AccI GTMKAC 1 cut(s) 267
AciI CCGC 2 cut(s) 31, 163
AclI AACGTT 1 cut(s) 732
AclWI GGATC 1 cut(s) 460
AcsI RAATTY 4 cut(s) 182, 505, 608, 1249
AcuI CTGAAG 1 cut(s) 1128
AdeI CACNNNGTG 1 cut(s) 144
AfaI GTAC 4 cut(s) 88, 278, 336, 1200
AfiI CCNNNNNNNGG 5 cut(s) 169, 628, 903, 1094, 1148
AgsI TTSAA 2 cut(s) 182, 353
AjiI CACGTC 1 cut(s) 956
AjnI CCWGG 3 cut(s) 393, 456, 1216
AluBI AGCT 6 cut(s) 109, 203, 407, 534, 879, 937
AluI AGCT 6 cut(s) 109, 203, 407, 534, 879, 937
Alw21I GWGCWC 3 cut(s) 60, 423, 1105
Alw26I GTCTC 2 cut(s) 572, 993
Alw44I GTGCAC 1 cut(s) 419
AlwI GGATC 1 cut(s) 460
AlwNI CAGNNNCTG 2 cut(s) 242, 463
AoxI GGCC 1 cut(s) 809
ApaLI GTGCAC 1 cut(s) 419
ApeKI GCWGC 4 cut(s) 314, 1082, 1240, 1243
ApoI RAATTY 4 cut(s) 182, 505, 608, 1249
AspLEI GCGC 1 cut(s) 1240
AspS9I GGNCC 4 cut(s) 557, 809, 1157, 1214
AsuC2I CCSGG 1 cut(s) 1230
AsuHPI GGTGA 3 cut(s) 611, 763, 1039
AvaII GGWCC 3 cut(s) 557, 1157, 1214
BaeGI GKGCMC 1 cut(s) 423
BbsI GAAGAC 2 cut(s) 449, 787
Bbv12I GWGCWC 3 cut(s) 60, 423, 1105
BbvI GCAGC 4 cut(s) 301, 1069, 1252, 1255
BccI CCATC 8 cut(s) 55, 509, 668, 670, 698, 755, 914, 1195
BceAI ACGGC 3 cut(s) 61, 383, 752
BciT130I CCWGG 3 cut(s) 395, 458, 1218
BciVI GTATCC 1 cut(s) 879
BclI TGATCA 1 cut(s) 547
BcnI CCSGG 1 cut(s) 1230
BcoDI GTCTC 2 cut(s) 572, 993
BfaI CTAG 1 cut(s) 531
BfmI CTRYAG 3 cut(s) 272, 315, 1116
BfuAI ACCTGC 1 cut(s) 250
BfuI GTATCC 1 cut(s) 879
BisI GCNGC 4 cut(s) 315, 1083, 1241, 1244
BlsI GCNGC 4 cut(s) 316, 1084, 1242, 1245
BmcAI AGTACT 1 cut(s) 278
Bme1390I CCNGG 4 cut(s) 395, 458, 1218, 1230
Bme18I GGWCC 3 cut(s) 557, 1157, 1214
BmgBI CACGTC 1 cut(s) 956
BmgT120I GGNCC 4 cut(s) 557, 809, 1157, 1214
BmiI GGNNCC 3 cut(s) 558, 1158, 1215
BmrFI CCNGG 4 cut(s) 395, 458, 1218, 1230
BmsI GCATC 6 cut(s) 352, 469, 487, 752, 1122, 1215
BpiI GAAGAC 2 cut(s) 449, 787
BpuEI CTTGAG 1 cut(s) 231
BpuMI CCSGG 1 cut(s) 1230
BsaJI CCNNGG 4 cut(s) 51, 77, 774, 897
Bsc4I CCNNNNNNNGG 5 cut(s) 169, 628, 903, 1094, 1148
Bse1I ACTGG 3 cut(s) 15, 516, 1061
BseBI CCWGG 3 cut(s) 395, 458, 1218
BseDI CCNNGG 4 cut(s) 51, 77, 774, 897
BseGI GGATG 6 cut(s) 47, 520, 525, 709, 743, 1134
BseLI CCNNNNNNNGG 5 cut(s) 169, 628, 903, 1094, 1148
BseMII CTCAG 4 cut(s) 53, 583, 714, 982
BseNI ACTGG 3 cut(s) 15, 516, 1061
BseRI GAGGAG 2 cut(s) 107, 1077
BseSI GKGCMC 1 cut(s) 423
BseXI GCAGC 4 cut(s) 301, 1069, 1252, 1255
BseYI CCCAGC 1 cut(s) 109
BsgI GTGCAG 2 cut(s) 378, 770
BshFI GGCC 1 cut(s) 811
BsiHKAI GWGCWC 3 cut(s) 60, 423, 1105
BsiSI CCGG 3 cut(s) 327, 1079, 1229
BslFI GGGAC 3 cut(s) 570, 644, 1170
BslI CCNNNNNNNGG 5 cut(s) 169, 628, 903, 1094, 1148
BsmAI GTCTC 2 cut(s) 572, 993
BsmFI GGGAC 3 cut(s) 570, 644, 1170
BsnI GGCC 1 cut(s) 811
Bsp1286I GDGCHC 3 cut(s) 60, 423, 1105
Bsp1407I TGTACA 1 cut(s) 86
Bsp143I GATC 4 cut(s) 465, 547, 822, 964
BspACI CCGC 2 cut(s) 31, 163
BspANI GGCC 1 cut(s) 811
BspCNI CTCAG 4 cut(s) 52, 582, 715, 981
BspLI GGNNCC 3 cut(s) 558, 1158, 1215
BspMAI CTGCAG 1 cut(s) 319
BspMI ACCTGC 1 cut(s) 250
BspPI GGATC 1 cut(s) 460
BsrGI TGTACA 1 cut(s) 86
BsrI ACTGG 3 cut(s) 15, 516, 1061
BssECI CCNNGG 4 cut(s) 51, 77, 774, 897
BssMI GATC 4 cut(s) 465, 547, 822, 964
BssT1I CCWWGG 3 cut(s) 51, 774, 897
Bst2UI CCWGG 3 cut(s) 395, 458, 1218
Bst4CI ACNGT 5 cut(s) 27, 265, 276, 1097, 1198
BstAPI GCANNNNNTGC 2 cut(s) 323, 488
BstAUI TGTACA 1 cut(s) 86
BstC8I GCNNGC 1 cut(s) 935
BstDEI CTNAG 4 cut(s) 39, 569, 723, 968
BstDSI CCRYGG 1 cut(s) 77
BstENI CCTNNNNNAGG 1 cut(s) 1146
BstF5I GGATG 6 cut(s) 47, 520, 525, 709, 743, 1134
BstHHI GCGC 1 cut(s) 1240
BstKTI GATC 4 cut(s) 468, 550, 825, 967
BstMAI GTCTC 2 cut(s) 572, 993
BstMBI GATC 4 cut(s) 465, 547, 822, 964
BstMWI GCNNNNNNNGC 8 cut(s) 115, 323, 488, 497, 665, 885, 1109, 1252
BstNI CCWGG 3 cut(s) 395, 458, 1218
BstNSI RCATGY 2 cut(s) 760, 1186
BstSCI CCNGG 4 cut(s) 393, 456, 1216, 1228
BstSFI CTRYAG 3 cut(s) 272, 315, 1116
BstSLI GKGCMC 1 cut(s) 423
BstV1I GCAGC 4 cut(s) 301, 1069, 1252, 1255
BstV2I GAAGAC 2 cut(s) 449, 787
BsuI GTATCC 1 cut(s) 879
BsuRI GGCC 1 cut(s) 811
BtgI CCRYGG 1 cut(s) 77
BtrI CACGTC 1 cut(s) 956
BtsCI GGATG 6 cut(s) 47, 520, 525, 709, 743, 1134
BtsIMutI CAGTG 3 cut(s) 461, 492, 509
BveI ACCTGC 1 cut(s) 250
Cac8I GCNNGC 1 cut(s) 935
CaiI CAGNNNCTG 2 cut(s) 242, 463
CfoI GCGC 1 cut(s) 1240
Cfr13I GGNCC 4 cut(s) 557, 809, 1157, 1214
CsiI ACCWGGT 1 cut(s) 393
Csp6I GTAC 4 cut(s) 87, 277, 335, 1199
CviAII CATG 7 cut(s) 757, 790, 829, 1069, 1183, 1222, 1274
CviQI GTAC 4 cut(s) 87, 277, 335, 1199
DdeI CTNAG 4 cut(s) 39, 569, 723, 968
DpnI GATC 4 cut(s) 467, 549, 824, 966
DpnII GATC 4 cut(s) 465, 547, 822, 964
DraIII CACNNNGTG 1 cut(s) 144
DrdI GACNNNNNNGTC 1 cut(s) 564
DseDI GACNNNNNNGTC 1 cut(s) 564
Eco130I CCWWGG 3 cut(s) 51, 774, 897
Eco32I GATATC 1 cut(s) 216
Eco47I GGWCC 3 cut(s) 557, 1157, 1214
Eco57I CTGAAG 1 cut(s) 1128
EcoNI CCTNNNNNAGG 1 cut(s) 1146
EcoO109I RGGNCCY 3 cut(s) 557, 1157, 1214
EcoRII CCWGG 3 cut(s) 393, 456, 1216
EcoRV GATATC 1 cut(s) 216
EcoT14I CCWWGG 3 cut(s) 51, 774, 897
ErhI CCWWGG 3 cut(s) 51, 774, 897
FaeI CATG 7 cut(s) 760, 793, 832, 1072, 1186, 1225, 1277
FalI AAGNNNNNCTT 2 cut(s) 881, 913
FaqI GGGAC 3 cut(s) 570, 644, 1170
FatI CATG 7 cut(s) 756, 789, 828, 1068, 1182, 1221, 1273
FbaI TGATCA 1 cut(s) 547
FblI GTMKAC 1 cut(s) 267
Fnu4HI GCNGC 4 cut(s) 315, 1083, 1241, 1244
FokI GGATG 6 cut(s) 34, 512, 527, 716, 730, 1141
Fsp4HI GCNGC 4 cut(s) 315, 1083, 1241, 1244
FspBI CTAG 1 cut(s) 531
FspI TGCGCA 1 cut(s) 1239
GlaI GCGC 1 cut(s) 1239
GluI GCNGC 4 cut(s) 315, 1083, 1241, 1244
GsaI CCCAGC 1 cut(s) 113
HaeIII GGCC 1 cut(s) 811
HapII CCGG 3 cut(s) 327, 1079, 1229
HhaI GCGC 1 cut(s) 1240
Hin1II CATG 7 cut(s) 760, 793, 832, 1072, 1186, 1225, 1277
Hin6I GCGC 1 cut(s) 1238
HinP1I GCGC 1 cut(s) 1238
HincII GTYRAC 1 cut(s) 1066
HindII GTYRAC 1 cut(s) 1066
HinfI GANTC 6 cut(s) 453, 616, 862, 1045, 1075, 1171
HpaI GTTAAC 1 cut(s) 1066
HpaII CCGG 3 cut(s) 327, 1079, 1229
HphI GGTGA 3 cut(s) 611, 763, 1039
Hpy166II GTNNAC 7 cut(s) 87, 136, 268, 301, 421, 1030, 1066
Hpy188I TCNGA 5 cut(s) 155, 238, 478, 615, 687
Hpy188III TCNNGA 5 cut(s) 571, 585, 751, 872, 1191
Hpy8I GTNNAC 7 cut(s) 87, 136, 268, 301, 421, 1030, 1066
Hpy99I CGWCG 1 cut(s) 155
HpyAV CCTTC 3 cut(s) 347, 659, 1152
HpyCH4III ACNGT 5 cut(s) 27, 265, 276, 1097, 1198
HpyCH4IV ACGT 4 cut(s) 150, 732, 780, 955
HpyF10VI GCNNNNNNNGC 8 cut(s) 115, 323, 488, 497, 665, 885, 1109, 1252
HpyF3I CTNAG 4 cut(s) 39, 569, 723, 968
HpySE526I ACGT 4 cut(s) 150, 732, 780, 955
Hsp92II CATG 7 cut(s) 760, 793, 832, 1072, 1186, 1225, 1277
HspAI GCGC 1 cut(s) 1238
Ksp22I TGATCA 1 cut(s) 547
KspAI GTTAAC 1 cut(s) 1066
Kzo9I GATC 4 cut(s) 465, 547, 822, 964
LmnI GCTCC 8 cut(s) 63, 155, 546, 664, 942, 993, 1090, 1117
Lsp1109I GCAGC 4 cut(s) 301, 1069, 1252, 1255
LweI GCATC 6 cut(s) 352, 469, 487, 752, 1122, 1215
MabI ACCWGGT 1 cut(s) 393
MaeI CTAG 1 cut(s) 531
MaeII ACGT 4 cut(s) 150, 732, 780, 955
MaeIII GTNAC 4 cut(s) 343, 617, 728, 769
MalI GATC 4 cut(s) 467, 549, 824, 966
MboI GATC 4 cut(s) 465, 547, 822, 964
MboII GAAGA 4 cut(s) 454, 531, 728, 787
MfeI CAATTG 1 cut(s) 348
MhlI GDGCHC 3 cut(s) 60, 423, 1105
MlyI GAGTC 2 cut(s) 625, 1084
MmeI TCCRAC 1 cut(s) 133
MseI TTAA 2 cut(s) 194, 1065
MslI CAYNNNNRTG 1 cut(s) 1022
MspA1I CMGCKG 1 cut(s) 879
MspI CCGG 3 cut(s) 327, 1079, 1229
MspR9I CCNGG 4 cut(s) 395, 458, 1218, 1230
MunI CAATTG 1 cut(s) 348
MvaI CCWGG 3 cut(s) 395, 458, 1218
MwoI GCNNNNNNNGC 8 cut(s) 115, 323, 488, 497, 665, 885, 1109, 1252
NciI CCSGG 1 cut(s) 1230
NdeII GATC 4 cut(s) 465, 547, 822, 964
NlaIII CATG 7 cut(s) 760, 793, 832, 1072, 1186, 1225, 1277
NlaIV GGNNCC 3 cut(s) 558, 1158, 1215
NmuCI GTSAC 2 cut(s) 617, 769
NsbI TGCGCA 1 cut(s) 1239
NspI RCATGY 2 cut(s) 760, 1186
PcsI WCGNNNNNNNCGW 1 cut(s) 215
PfeI GAWTC 4 cut(s) 453, 862, 1045, 1171
PkrI GCNGC 4 cut(s) 316, 1084, 1242, 1245
PleI GAGTC 2 cut(s) 624, 1083
PpsI GAGTC 2 cut(s) 624, 1083
PpuMI RGGWCCY 3 cut(s) 557, 1157, 1214
Psp1406I AACGTT 1 cut(s) 732
Psp5II RGGWCCY 3 cut(s) 557, 1157, 1214
Psp6I CCWGG 3 cut(s) 393, 456, 1216
PspFI CCCAGC 1 cut(s) 109
PspGI CCWGG 3 cut(s) 393, 456, 1216
PspN4I GGNNCC 3 cut(s) 558, 1158, 1215
PspPI GGNCC 4 cut(s) 557, 809, 1157, 1214
PspPPI RGGWCCY 3 cut(s) 557, 1157, 1214
PstI CTGCAG 1 cut(s) 319
PstNI CAGNNNCTG 2 cut(s) 242, 463
PvuII CAGCTG 1 cut(s) 879
RsaI GTAC 4 cut(s) 88, 278, 336, 1200
RsaNI GTAC 4 cut(s) 87, 277, 335, 1199
RseI CAYNNNNRTG 1 cut(s) 1022
SaqAI TTAA 2 cut(s) 194, 1065
SatI GCNGC 4 cut(s) 315, 1083, 1241, 1244
Sau3AI GATC 4 cut(s) 465, 547, 822, 964
Sau96I GGNCC 4 cut(s) 557, 809, 1157, 1214
ScaI AGTACT 1 cut(s) 278
SchI GAGTC 2 cut(s) 625, 1084
ScrFI CCNGG 4 cut(s) 395, 458, 1218, 1230
SduI GDGCHC 3 cut(s) 60, 423, 1105
SexAI ACCWGGT 1 cut(s) 393
SfaNI GCATC 6 cut(s) 352, 469, 487, 752, 1122, 1215
SfcI CTRYAG 3 cut(s) 272, 315, 1116
SinI GGWCC 3 cut(s) 557, 1157, 1214
SmiMI CAYNNNNRTG 1 cut(s) 1022
SmlI CTYRAG 1 cut(s) 246
SmoI CTYRAG 1 cut(s) 246
SsiI CCGC 2 cut(s) 31, 163
SspMI CTAG 1 cut(s) 531
StyD4I CCNGG 4 cut(s) 393, 456, 1216, 1228
StyI CCWWGG 3 cut(s) 51, 774, 897
TaaI ACNGT 5 cut(s) 27, 265, 276, 1097, 1198
TaiI ACGT 4 cut(s) 153, 735, 783, 958
TaqI TCGA 2 cut(s) 750, 1043
TatI WGTACW 3 cut(s) 86, 276, 334
TfiI GAWTC 4 cut(s) 453, 862, 1045, 1171
Tru1I TTAA 2 cut(s) 194, 1065
Tru9I TTAA 2 cut(s) 194, 1065
TscAI CASTG 3 cut(s) 468, 499, 516
TseFI GTSAC 2 cut(s) 617, 769
TseI GCWGC 4 cut(s) 314, 1082, 1240, 1243
Tsp45I GTSAC 2 cut(s) 617, 769
TspRI CASTG 3 cut(s) 468, 499, 516
VneI GTGCAC 1 cut(s) 419
VpaK11BI GGWCC 3 cut(s) 557, 1157, 1214
XagI CCTNNNNNAGG 1 cut(s) 1146
XapI RAATTY 4 cut(s) 182, 505, 608, 1249
XceI RCATGY 2 cut(s) 760, 1186
XcmI CCANNNNNNNNNTGG 1 cut(s) 1214
XmiI GTMKAC 1 cut(s) 267
XspI CTAG 1 cut(s) 531
ZrmI AGTACT 1 cut(s) 278
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.