Rw1G039480

Tetratricopeptide repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0009192
Physical Location & Seq
Reverse (-)
67052092 .. 67055285
3194 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G039480.1

Sequence Viewer

Length: 1683 bp
ATGGCAGCTTCTCTTCTTCTCCCTTCTCACTTCTTGAACACCTACAGGATAAGCAAACTGTGCTTACATCACATGCAGTCAGCAAACTCACACAAAGGCATAACTTGCTTATTCCCTGTTAGAGCACTGGCCTCAAGGTCTTTTGCTTCTGTTGGGTCAGTAGAAAATCATGTTTCAGCTCCAAACAAAACTCACAGGTGCTTTTTTGTTTGTTTGTTTGTTTCTGCAAGTGCTTTTTTCTCAAGTTCTAAAACATCCGATGGGACGGAGAATGATTTCGAGAGAGAGTTACAAGAGTTGTTTGATGAAGTGAAAATGTTGGTTATGAACGGGAATAAAGATGATGCAGTAGACTTGCTTCGAGCGAATTATGAGGCTGTGAAGGAGAGGATGGATGCCGGTGTTAGAGGCATTGAGGAAGCTGCTACCATTGACATCATAGCTCTAGGGTATATGGCTATTGGCGACTTTAAGTTTGTCGAGTCATTACTGGATATGTTGAATGAGATTGTTGGCAGTCTAAAGGATGATGAACCACTGCTGGATTCAGTTCTGGTGCATATGGGAAGCATGTATTCAACTTTGGCGAAGTTTGAGAAATCAATGCTTGTATATAGGAGGGCAATTGATAACATGGAGAACATGTATGGGAAAAATAGTGTTTTTCTTATCACACCAATTTTGGGCATGGCGAAAGTTCTCAGTTCTATTGGAAGGACTACAAAAGCAGTAGAGTTATACCATCGTGCAATAACTCTTCTTGAATCTAGCAGAGGTGCTGAAAGTGAGGATTTGGTCATACCTTTGTTTGGTCTTGGCAGCCTTTTACTCAAACAAGGGAAACCTATTGAGGCAGAAACTCCTTTTCTAAGAATTTTAAATATATACACAAAGTTGTATGGAGAAGACGACGGAAGAGTTGGAATGGCTATGAGTTCCCTGGCCCATGCGAAGTGTGCAATGGGAAAGGCAAATGAAGCAATTGATTTATATAAAAAGGCTCTTAAAGTCATCAAGGATTCCAATTATATGGCTTCAGATGACAGCATAGTGGAGAAGATGCGGATAGATTTGGCAGAATTACTTCATGCTGTTGGAAGGGGAAAGGAAGGCCGAGAGCTACTGGAGGAATGCTTGCTGATCACTGAGAAACACAAAGGCAAAGAGGACCCCAACTCAGTGACACACCTTATCAATCTCGCAACTTCGCATTCGCGCTCAAAGAACTATGTGGAGGCTGAGCGCTTGCTGAGGACGAGTTTGCAGGTCTTGGCAAAGACAGTGGCACCCGATGACCAATCCATCTCGTTCCCAATGTTGCACCTCGCCGTTACTCTCTACCAATTAAAACGGGATGAAGAAGCAGAACAGCTCGCCCTCCAGGCTTTGCACATTCGTGAGAAAGCATTCGGAAAGGACTCCCTTCCCGTTGCGGAGGCTCTCGACTGTCTGGTGTCAATCCAAACTAGATTAACGAGAGACGACGAAGCGTTACTAGAGCAGCTGAAGAGGGTGTTGAGCATCCAAGAGAAAGAGTTCGGCCCCGAGAGCAAGGAGGTTTTGACAACCCTAAAAAAAGTTGTACATTACTTAGACAAACTAGGCAGGAAAAACGACAAGCTCCTCTTGCAGAAAAGGCTCTCCGCCCTTAGATCAAAATTCAAGCAACAAATCCAACAATAA
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
TPR_10 TPR_12 TPR_8

Protein Analysis

560

Amino Acids

62.6

Weight (kDa)

6.62

Isoelectric Point (pI)

41.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_NPHP3 PF24885 172 - 256 7.1e-07 Nephrocystin-3 TPR domain
TPR_MalT PF17874 184 - 465 7.1e-13 MalT-like TPR region
TPR_12 PF13424 228 - 298 4.9e-09 Tetratricopeptide repeat
TPR_12 PF13424 271 - 337 1.6e-10 Tetratricopeptide repeat
TPR_12 PF13424 356 - 424 8.8e-10 Tetratricopeptide repeat
TPR_NPHP3 PF24885 416 - 524 2.7e-07 Nephrocystin-3 TPR domain
TPR_10 PF13374 439 - 474 1.1e-07 Tetratricopeptide repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1255
AccB1I GGYRCC 1 cut(s) 1285
AccI GTMKAC 1 cut(s) 351
AccII CGCG 1 cut(s) 1216
AciI CCGC 3 cut(s) 1063, 1433, 1644
AcsI RAATTY 2 cut(s) 873, 1658
AcuI CTGAAG 2 cut(s) 1020, 1526
AfaI GTAC 1 cut(s) 1584
AfeI AGCGCT 1 cut(s) 1244
AfiI CCNNNNNNNGG 2 cut(s) 683, 809
AflIII ACRYGT 1 cut(s) 642
AgsI TTSAA 5 cut(s) 37, 502, 579, 764, 1663
AjnI CCWGG 2 cut(s) 939, 1380
AleI CACNNNNGTG 1 cut(s) 1395
AluBI AGCT 8 cut(s) 8, 179, 422, 443, 1120, 1372, 1504, 1621
AluI AGCT 8 cut(s) 8, 179, 422, 443, 1120, 1372, 1504, 1621
Alw21I GWGCWC 1 cut(s) 127
Alw26I GTCTC 1 cut(s) 1473
Ama87I CYCGRG 1 cut(s) 1544
Aor51HI AGCGCT 1 cut(s) 1244
AoxI GGCC 4 cut(s) 129, 942, 1111, 1540
ApeKI GCWGC 4 cut(s) 5, 422, 819, 1501
ApoI RAATTY 2 cut(s) 873, 1658
ArsI GACNNNNNNTTYG 2 cut(s) 458, 490
Asp700I GAANNNNTTC 4 cut(s) 275, 1083, 1406, 1535
AspLEI GCGC 2 cut(s) 1218, 1245
AspS9I GGNCC 3 cut(s) 943, 1168, 1541
AvaI CYCGRG 1 cut(s) 1544
AvaII GGWCC 1 cut(s) 1168
BanI GGYRCC 1 cut(s) 1285
BarI GAAGNNNNNNTAC 2 cut(s) 342, 374
BbsI GAAGAC 1 cut(s) 912
Bbv12I GWGCWC 1 cut(s) 127
BbvCI CCTCAGC 1 cut(s) 1250
BbvI GCAGC 4 cut(s) 17, 409, 831, 1513
BccI CCATC 4 cut(s) 254, 385, 750, 1310
BceAI ACGGC 1 cut(s) 1313
BciT130I CCWGG 2 cut(s) 941, 1382
BclI TGATCA 1 cut(s) 1140
BcoDI GTCTC 1 cut(s) 1473
BfaI CTAG 5 cut(s) 446, 768, 1467, 1496, 1601
BfmI CTRYAG 1 cut(s) 43
BfoI RGCGCY 1 cut(s) 1246
BfuAI ACCTGC 1 cut(s) 1255
BglI GCCNNNNNGGC 1 cut(s) 1382
BisI GCNGC 4 cut(s) 6, 423, 820, 1502
BlpI GCTNAGC 1 cut(s) 1239
BlsI GCNGC 4 cut(s) 7, 424, 821, 1503
Bme1390I CCNGG 2 cut(s) 941, 1382
Bme18I GGWCC 1 cut(s) 1168
BmeT110I CYCGRG 1 cut(s) 1544
BmgT120I GGNCC 3 cut(s) 943, 1168, 1541
BmiI GGNNCC 3 cut(s) 1170, 1287, 1543
BmrFI CCNGG 2 cut(s) 941, 1382
BmsI GCATC 4 cut(s) 334, 385, 1050, 1530
BpiI GAAGAC 1 cut(s) 912
BpmI CTGGAG 2 cut(s) 1145, 1364
Bpu10I CCTNAGC 1 cut(s) 1250
Bpu1102I GCTNAGC 1 cut(s) 1239
BpuEI CTTGAG 2 cut(s) 118, 226
BsaJI CCNNGG 1 cut(s) 939
BsaXI ACNNNNNCTCC 2 cut(s) 629, 659
Bsc4I CCNNNNNNNGG 2 cut(s) 683, 809
Bse118I RCCGGY 1 cut(s) 398
Bse1I ACTGG 3 cut(s) 132, 495, 1128
Bse3DI GCAATG 1 cut(s) 966
BseBI CCWGG 2 cut(s) 941, 1382
BseDI CCNNGG 1 cut(s) 939
BseGI GGATG 6 cut(s) 254, 396, 400, 532, 1360, 1521
BseLI CCNNNNNNNGG 2 cut(s) 683, 809
BseMI GCAATG 1 cut(s) 966
BseMII CTCAG 5 cut(s) 715, 1137, 1191, 1230, 1241
BseNI ACTGG 3 cut(s) 132, 495, 1128
BseRI GAGGAG 1 cut(s) 1613
BseXI GCAGC 4 cut(s) 17, 409, 831, 1513
Bsh1236I CGCG 1 cut(s) 1216
BshFI GGCC 4 cut(s) 131, 944, 1113, 1542
BshNI GGYRCC 1 cut(s) 1285
BsiHKAI GWGCWC 1 cut(s) 127
BsiHKCI CYCGRG 1 cut(s) 1544
BsiSI CCGG 1 cut(s) 399
BslFI GGGAC 1 cut(s) 277
BslI CCNNNNNNNGG 2 cut(s) 683, 809
BsmAI GTCTC 1 cut(s) 1473
BsmBI CGTCTC 1 cut(s) 1473
BsmFI GGGAC 1 cut(s) 277
BsmI GAATGC 3 cut(s) 1136, 1210, 1406
BsnI GGCC 4 cut(s) 131, 944, 1113, 1542
BsoBI CYCGRG 1 cut(s) 1544
Bsp1286I GDGCHC 1 cut(s) 127
Bsp1407I TGTACA 1 cut(s) 1582
Bsp143I GATC 2 cut(s) 1140, 1652
Bsp1720I GCTNAGC 1 cut(s) 1239
BspACI CCGC 3 cut(s) 1063, 1433, 1644
BspANI GGCC 4 cut(s) 131, 944, 1113, 1542
BspCNI CTCAG 5 cut(s) 714, 1138, 1190, 1231, 1242
BspFNI CGCG 1 cut(s) 1216
BspLI GGNNCC 3 cut(s) 1170, 1287, 1543
BspMI ACCTGC 1 cut(s) 1255
BspT107I GGYRCC 1 cut(s) 1285
BsrDI GCAATG 1 cut(s) 966
BsrFI RCCGGY 1 cut(s) 398
BsrGI TGTACA 1 cut(s) 1582
BsrI ACTGG 3 cut(s) 132, 495, 1128
BssAI RCCGGY 1 cut(s) 398
BssECI CCNNGG 1 cut(s) 939
BssMI GATC 2 cut(s) 1140, 1652
Bst2UI CCWGG 2 cut(s) 941, 1382
Bst4CI ACNGT 3 cut(s) 60, 1282, 1448
Bst6I CTCTTC 4 cut(s) 18, 762, 910, 1502
BstAPI GCANNNNNTGC 2 cut(s) 60, 105
BstAUI TGTACA 1 cut(s) 1582
BstC8I GCNNGC 3 cut(s) 1136, 1247, 1374
BstDEI CTNAG 8 cut(s) 701, 869, 1146, 1177, 1239, 1250, 1591, 1649
BstF5I GGATG 6 cut(s) 254, 396, 400, 532, 1360, 1521
BstFNI CGCG 1 cut(s) 1216
BstH2I RGCGCY 1 cut(s) 1246
BstHHI GCGC 2 cut(s) 1218, 1245
BstKTI GATC 2 cut(s) 1143, 1655
BstMAI GTCTC 1 cut(s) 1473
BstMBI GATC 2 cut(s) 1140, 1652
BstMWI GCNNNNNNNGC 8 cut(s) 60, 105, 956, 977, 1382, 1548, 1627, 1636
BstNI CCWGG 2 cut(s) 941, 1382
BstNSI RCATGY 3 cut(s) 76, 574, 646
BstSCI CCNGG 2 cut(s) 939, 1380
BstSFI CTRYAG 1 cut(s) 43
BstUI CGCG 1 cut(s) 1216
BstV1I GCAGC 4 cut(s) 17, 409, 831, 1513
BstV2I GAAGAC 1 cut(s) 912
BstXI CCANNNNNNTGG 1 cut(s) 1030
BsuRI GGCC 4 cut(s) 131, 944, 1113, 1542
BtsCI GGATG 6 cut(s) 254, 396, 400, 532, 1360, 1521
BtsI GCAGTG 1 cut(s) 536
BtsIMutI CAGTG 5 cut(s) 125, 536, 1143, 1185, 1287
BveI ACCTGC 1 cut(s) 1255
Cac8I GCNNGC 3 cut(s) 1136, 1247, 1374
CfoI GCGC 2 cut(s) 1218, 1245
Cfr10I RCCGGY 1 cut(s) 398
Cfr13I GGNCC 3 cut(s) 943, 1168, 1541
Csp6I GTAC 1 cut(s) 1583
CspCI CAANNNNNGTGG 2 cut(s) 1263, 1298
CviAII CATG 8 cut(s) 73, 170, 571, 634, 643, 688, 947, 1088
CviQI GTAC 1 cut(s) 1583
DdeI CTNAG 8 cut(s) 701, 869, 1146, 1177, 1239, 1250, 1591, 1649
DpnI GATC 2 cut(s) 1142, 1654
DpnII GATC 2 cut(s) 1140, 1652
DraI TTTAAA 1 cut(s) 879
Eam1104I CTCTTC 4 cut(s) 18, 762, 910, 1502
EarI CTCTTC 4 cut(s) 18, 762, 910, 1502
EciI GGCGGA 1 cut(s) 1633
Eco47I GGWCC 1 cut(s) 1168
Eco47III AGCGCT 1 cut(s) 1244
Eco57I CTGAAG 2 cut(s) 1020, 1526
Eco88I CYCGRG 1 cut(s) 1544
EcoO109I RGGNCCY 1 cut(s) 1168
EcoRII CCWGG 2 cut(s) 939, 1380
Esp3I CGTCTC 1 cut(s) 1473
FaeI CATG 8 cut(s) 76, 173, 574, 637, 646, 691, 950, 1091
FalI AAGNNNNNCTT 2 cut(s) 1610, 1642
FaqI GGGAC 1 cut(s) 277
FatI CATG 8 cut(s) 72, 169, 570, 633, 642, 687, 946, 1087
FauNDI CATATG 1 cut(s) 561
FbaI TGATCA 1 cut(s) 1140
FblI GTMKAC 1 cut(s) 351
Fnu4HI GCNGC 4 cut(s) 6, 423, 820, 1502
FokI GGATG 6 cut(s) 241, 403, 407, 539, 1367, 1508
Fsp4HI GCNGC 4 cut(s) 6, 423, 820, 1502
FspBI CTAG 5 cut(s) 446, 768, 1467, 1496, 1601
GlaI GCGC 2 cut(s) 1217, 1244
GluI GCNGC 4 cut(s) 6, 423, 820, 1502
GsuI CTGGAG 2 cut(s) 1145, 1364
HaeII RGCGCY 1 cut(s) 1246
HaeIII GGCC 4 cut(s) 131, 944, 1113, 1542
HapII CCGG 1 cut(s) 399
HhaI GCGC 2 cut(s) 1218, 1245
Hin1II CATG 8 cut(s) 76, 173, 574, 637, 646, 691, 950, 1091
Hin6I GCGC 2 cut(s) 1216, 1243
HinP1I GCGC 2 cut(s) 1216, 1243
HinfI GANTC 5 cut(s) 482, 545, 764, 1019, 1418
HpaII CCGG 1 cut(s) 399
Hpy166II GTNNAC 1 cut(s) 352
Hpy188I TCNGA 3 cut(s) 259, 1039, 1412
Hpy188III TCNNGA 5 cut(s) 34, 280, 761, 1397, 1442
Hpy8I GTNNAC 1 cut(s) 352
Hpy99I CGWCG 2 cut(s) 914, 1487
HpyAV CCTTC 6 cut(s) 33, 376, 708, 1092, 1103, 1433
HpyCH4III ACNGT 3 cut(s) 60, 1282, 1448
HpyF10VI GCNNNNNNNGC 8 cut(s) 60, 105, 956, 977, 1382, 1548, 1627, 1636
HpyF3I CTNAG 8 cut(s) 701, 869, 1146, 1177, 1239, 1250, 1591, 1649
Hsp92II CATG 8 cut(s) 76, 173, 574, 637, 646, 691, 950, 1091
HspAI GCGC 2 cut(s) 1216, 1243
Ksp22I TGATCA 1 cut(s) 1140
Kzo9I GATC 2 cut(s) 1140, 1652
LmnI GCTCC 2 cut(s) 184, 1626
Lsp1109I GCAGC 4 cut(s) 17, 409, 831, 1513
LweI GCATC 4 cut(s) 334, 385, 1050, 1530
MaeI CTAG 5 cut(s) 446, 768, 1467, 1496, 1601
MaeIII GTNAC 4 cut(s) 288, 1180, 1330, 1491
MalI GATC 2 cut(s) 1142, 1654
MboI GATC 2 cut(s) 1140, 1652
MboII GAAGA 8 cut(s) 5, 8, 749, 917, 927, 1069, 1370, 1519
MfeI CAATTG 2 cut(s) 624, 981
MhlI GDGCHC 1 cut(s) 127
MluCI AATT 9 cut(s) 367, 624, 678, 873, 981, 1024, 1079, 1343, 1658
MlyI GAGTC 2 cut(s) 491, 1412
MmeI TCCRAC 2 cut(s) 901, 1075
MroXI GAANNNNTTC 4 cut(s) 275, 1083, 1406, 1535
MseI TTAA 5 cut(s) 471, 878, 1005, 1346, 1472
MslI CAYNNNNRTG 1 cut(s) 1395
MspA1I CMGCKG 1 cut(s) 1504
MspI CCGG 1 cut(s) 399
MspR9I CCNGG 2 cut(s) 941, 1382
MunI CAATTG 2 cut(s) 624, 981
Mva1269I GAATGC 3 cut(s) 1136, 1210, 1406
MvaI CCWGG 2 cut(s) 941, 1382
MvnI CGCG 1 cut(s) 1216
MwoI GCNNNNNNNGC 8 cut(s) 60, 105, 956, 977, 1382, 1548, 1627, 1636
NdeI CATATG 1 cut(s) 561
NdeII GATC 2 cut(s) 1140, 1652
NlaIII CATG 8 cut(s) 76, 173, 574, 637, 646, 691, 950, 1091
NlaIV GGNNCC 3 cut(s) 1170, 1287, 1543
NmeAIII GCCGAG 1 cut(s) 1139
NmuCI GTSAC 1 cut(s) 1180
NspI RCATGY 3 cut(s) 76, 574, 646
OliI CACNNNNGTG 1 cut(s) 1395
PciI ACATGT 1 cut(s) 642
PctI GAATGC 3 cut(s) 1136, 1210, 1406
PdmI GAANNNNTTC 4 cut(s) 275, 1083, 1406, 1535
PfeI GAWTC 3 cut(s) 545, 764, 1019
PkrI GCNGC 4 cut(s) 7, 424, 821, 1503
PleI GAGTC 2 cut(s) 490, 1412
PpsI GAGTC 2 cut(s) 490, 1412
PpuMI RGGWCCY 1 cut(s) 1168
PscI ACATGT 1 cut(s) 642
Psp5II RGGWCCY 1 cut(s) 1168
Psp6I CCWGG 2 cut(s) 939, 1380
PspGI CCWGG 2 cut(s) 939, 1380
PspN4I GGNNCC 3 cut(s) 1170, 1287, 1543
PspPI GGNCC 3 cut(s) 943, 1168, 1541
PspPPI RGGWCCY 1 cut(s) 1168
PvuII CAGCTG 1 cut(s) 1504
RsaI GTAC 1 cut(s) 1584
RsaNI GTAC 1 cut(s) 1583
RseI CAYNNNNRTG 1 cut(s) 1395
SaqAI TTAA 5 cut(s) 471, 878, 1005, 1346, 1472
SatI GCNGC 4 cut(s) 6, 423, 820, 1502
Sau3AI GATC 2 cut(s) 1140, 1652
Sau96I GGNCC 3 cut(s) 943, 1168, 1541
SchI GAGTC 2 cut(s) 491, 1412
ScrFI CCNGG 2 cut(s) 941, 1382
SduI GDGCHC 1 cut(s) 127
SfaNI GCATC 4 cut(s) 334, 385, 1050, 1530
SfcI CTRYAG 1 cut(s) 43
SinI GGWCC 1 cut(s) 1168
SmiMI CAYNNNNRTG 1 cut(s) 1395
SmlI CTYRAG 2 cut(s) 133, 241
SmoI CTYRAG 2 cut(s) 133, 241
Sse9I AATT 9 cut(s) 367, 624, 678, 873, 981, 1024, 1079, 1343, 1658
SsiI CCGC 3 cut(s) 1063, 1433, 1644
SspMI CTAG 5 cut(s) 446, 768, 1467, 1496, 1601
StyD4I CCNGG 2 cut(s) 939, 1380
TaaI ACNGT 3 cut(s) 60, 1282, 1448
TaqI TCGA 4 cut(s) 279, 361, 480, 1443
TasI AATT 9 cut(s) 367, 624, 678, 873, 981, 1024, 1079, 1343, 1658
TatI WGTACW 1 cut(s) 1582
TfiI GAWTC 3 cut(s) 545, 764, 1019
Tru1I TTAA 5 cut(s) 471, 878, 1005, 1346, 1472
Tru9I TTAA 5 cut(s) 471, 878, 1005, 1346, 1472
TscAI CASTG 5 cut(s) 132, 543, 1150, 1185, 1287
TseFI GTSAC 1 cut(s) 1180
TseI GCWGC 4 cut(s) 5, 422, 819, 1501
Tsp45I GTSAC 1 cut(s) 1180
TspDTI ATGAA 6 cut(s) 321, 341, 546, 990, 1076, 1371
TspGWI ACGGA 2 cut(s) 281, 927
TspRI CASTG 5 cut(s) 132, 543, 1150, 1185, 1287
VpaK11BI GGWCC 1 cut(s) 1168
XapI RAATTY 2 cut(s) 873, 1658
XceI RCATGY 3 cut(s) 76, 574, 646
XmiI GTMKAC 1 cut(s) 351
XmnI GAANNNNTTC 4 cut(s) 275, 1083, 1406, 1535
XspI CTAG 5 cut(s) 446, 768, 1467, 1496, 1601
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.