Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0010286

Physical Location & Seq

Genomic Coordinates Reverse (-)

24359234 .. 24360730

Gene Structure 1497 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0177800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1497 bp

ATGCTTGCAAAACAGGCTTGGCGTGTTGTGAATAATCCAAACTGCTTGGTTGCTCGAATTTTCAAGGCCAAATATTTTCCGGATACTTCTTTCTGGTTGGCTAATTCTCATGCTACTCCTTCTTTTTCATGGAGAAGTTTATTTTCCACAAGAGAACTTTTAAGGCAAGGCTCTTATTGGCAGGTTGGTGATGGAGCTAATGTGAATATCTGGTCTGATTGTTGGCTGCCAGGGGTGCTAGATTACAAACCAATGGAGAATAATGTGGTGGCTAATGAGGTTCGACAGGTCAGTGACCTTATTGCTCCTGCAGGGTTGTGGAATGTTAACTTGGTTAGACAAATTTTTCCTGTAGCCGAGGCAGAAGCTATCTTGAGTCTTCCCTTAAGCACAAGAGCTGTTGAAGATAGAGTTGTGTGGAGGTTGGAGAAAAATGGTAAGTTTACTGTTAAGTCAGCTTACCGCTTTGATTTTGCTAGCTCTAATGTTAGAAGGCCTTTCCAATTATCTGTTGGAATGAGTTTTTGGAAAAAGCTATGGAAGGTTCATATACCTAACTCTGCCAAGGTTCATATCTGGAGAGTTTGTCATAATATATTACCTTCATTGGAAAGGCTTGTGTCAAAAAGGGTTATACTGGACTCTTTAGTGTGTGTTCTATGTTCTTCTTCTTTAGAGACTACATTGCATATATGTCGGGATTGCCCTTACACTAAGCAGTTGGTTCAAGCTAATGGAGTCTTGGCTCAGGTGTGTTTTAATCCTCATACAGCTCACTGTGATTTATTGGAATGGTTTAGCTATTGTGTCTATGAGCTTGCTTTAAAAGATTTGGGTGACTTGATTTATATTCTTTGGGGAGTATGGAAGGAACGAAACAATAGAGTTTGGGAAAATAAAAGGCTTCCTGCATGTGATGTTCTACTCAAGTCTATGACTCAGTTGCATGCATACAGATTTTATAACTTGAAGGTGGGAATTGGATGTCCTGTGAGGGTTGTTCGATGGTCTGCACCACCTTTGGGTTGGTGCAAGATCAATGTAGATGGATCTTATAATCACACAACAAAGAATGGAGGCATTGGTTTTGTTATTCGAGACTATCAGGGTGTGTTACTTGCTAGTGGCGGACGACCACTACATGGTCTTCTTTCGCCTGAACATGCAGAAGTGCTTGCTTGTAGTATGGCAGTGCATTTTGCTGTAGAAAATGCTTTTGTTCCAGCCATTTTGGAAACAGACTCTCAACTTGTCCAGAGGCAGTTGACAGGGCTAGATGGGATTAACACTTCTATCTTGGGTCGAGTTTATGAGGACCTGAGGCTAGCTTTGGAAGGTCAGAATAATATGAAGATTGTTCATATCAACAGGAGCGCAAATAAGGTTGCACACCTTATGGCAGCACGAGCTTGTTTTGAGCTGCAAGAGTTTTTTTACTTTTCATCTTCCCCTTCATTTTTGTCAGCTGCATTAGCAGCTGAATCCACCCCTCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3 Pkinase

Protein Analysis

498

Amino Acids

56.28

Weight (kDa)

9.01

Isoelectric Point (pI)

44.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	148 - 241	1.4e-12	zinc-binding in reverse transcriptase
RVT_3	PF13456	347 - 470	2.3e-23	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010286)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G71460
fragaria_vesca	FvH4_7g09420 FvH4_7g09420 FvH4_7g09420
malus_domestica	MD07G1098200.v1.1
prunus_persica	Prupe.2G122200_v2.0.a1
pyrus_communis	pycom07g08080 pycom12652g00070 pycom12652g00080
rosa_chinensis	RchiOBHm_Chr1g0346071
rosa_laevigata	RLG00000028816
rosa_multiflora	Rmu_sc0009190.1_g000001 Rmu_ssc0000255.1_g000072
rosa_roxburghii	Rroxscaffold_4G00308840
rosa_rugosa	Rorug01G0177800
rosa_samantha	Rh1AG197300 Rh1BG162500 Rh1CG182300 Rh1DG193000
rosa_wichuraiana	Rw1G016350 Rw1G016560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	963, 1056
Acc36I	ACCTGC	1 cut(s)	172
AccB7I	CCANNNNNTGG	1 cut(s)	1142
AccIII	TCCGGA	1 cut(s)	79
AciI	CCGC	2 cut(s)	463, 1128
AclWI	GGATC	1 cut(s)	1057
AcsI	RAATTY	2 cut(s)	57, 342
AfiI	CCNNNNNNNGG	2 cut(s)	1022, 1142
AflII	CTTAAG	1 cut(s)	385
AgsI	TTSAA	4 cut(s)	64, 404, 728, 970
AjnI	CCWGG	1 cut(s)	229
AjuI	GAANNNNNNNTTGG	4 cut(s)	314, 346, 508, 540
Alw26I	GTCTC	2 cut(s)	671, 1092
AlwI	GGATC	1 cut(s)	1057
Aor13HI	TCCGGA	1 cut(s)	79
AoxI	GGCC	2 cut(s)	66, 494
ApeKI	GCWGC	5 cut(s)	226, 1400, 1420, 1466, 1475
ApoI	RAATTY	2 cut(s)	57, 342
AspLEI	GCGC	1 cut(s)	1376
AspS9I	GGNCC	1 cut(s)	1315
AsuHPI	GGTGA	2 cut(s)	200, 848
AsuNHI	GCTAGC	2 cut(s)	476, 1324
AvaII	GGWCC	1 cut(s)	1315
AxyI	CCTNAGG	1 cut(s)	1319
BauI	CACGAG	1 cut(s)	1404
BbsI	GAAGAC	2 cut(s)	371, 1139
BbvI	GCAGC	5 cut(s)	213, 1407, 1412, 1453, 1487
BccI	CCATC	4 cut(s)	185, 999, 1040, 1271
BcgI	CGANNNNNNTGC	2 cut(s)	677, 711
BciT130I	CCWGG	1 cut(s)	231
BciVI	GTATCC	1 cut(s)	76
BcoDI	GTCTC	2 cut(s)	671, 1092
BfaI	CTAG	5 cut(s)	239, 477, 1122, 1274, 1325
BfmI	CTRYAG	3 cut(s)	309, 351, 1203
BfrI	CTTAAG	1 cut(s)	385
BfuAI	ACCTGC	1 cut(s)	172
BfuI	GTATCC	1 cut(s)	76
BisI	GCNGC	5 cut(s)	227, 1401, 1421, 1467, 1476
BlsI	GCNGC	5 cut(s)	228, 1402, 1422, 1468, 1477
Bme1390I	CCNGG	1 cut(s)	231
Bme18I	GGWCC	1 cut(s)	1315
BmgT120I	GGNCC	1 cut(s)	1315
BmrFI	CCNGG	1 cut(s)	231
BmtI	GCTAGC	2 cut(s)	480, 1328
BpiI	GAAGAC	2 cut(s)	371, 1139
BpmI	CTGGAG	1 cut(s)	598
Bpu10I	CCTNAGC	1 cut(s)	747
BpuEI	CTTGAG	2 cut(s)	394, 911
BsaJI	CCNNGG	3 cut(s)	230, 357, 564
BsaWI	WCCGGW	1 cut(s)	79
BsaXI	ACNNNNNCTCC	4 cut(s)	186, 216, 571, 601
Bsc4I	CCNNNNNNNGG	2 cut(s)	1022, 1142
Bse1I	ACTGG	1 cut(s)	642
Bse21I	CCTNAGG	1 cut(s)	1319
Bse3DI	GCAATG	1 cut(s)	683
BseAI	TCCGGA	1 cut(s)	79
BseBI	CCWGG	1 cut(s)	231
BseDI	CCNNGG	3 cut(s)	230, 357, 564
BseGI	GGATG	1 cut(s)	989
BseLI	CCNNNNNNNGG	2 cut(s)	1022, 1142
BseMI	GCAATG	1 cut(s)	683
BseMII	CTCAG	3 cut(s)	761, 953, 1310
BseNI	ACTGG	1 cut(s)	642
BseXI	GCAGC	5 cut(s)	213, 1407, 1412, 1453, 1487
BsgI	GTGCAG	1 cut(s)	996
BshFI	GGCC	2 cut(s)	68, 496
BsiSI	CCGG	1 cut(s)	80
BslI	CCNNNNNNNGG	2 cut(s)	1022, 1142
BsmAI	GTCTC	2 cut(s)	671, 1092
BsnI	GGCC	2 cut(s)	68, 496
Bsp13I	TCCGGA	1 cut(s)	79
Bsp143I	GATC	2 cut(s)	1035, 1049
BspACI	CCGC	2 cut(s)	463, 1128
BspANI	GGCC	2 cut(s)	68, 496
BspCNI	CTCAG	3 cut(s)	760, 952, 1311
BspEI	TCCGGA	1 cut(s)	79
BspMAI	CTGCAG	1 cut(s)	313
BspMI	ACCTGC	1 cut(s)	172
BspOI	GCTAGC	2 cut(s)	480, 1328
BspPI	GGATC	1 cut(s)	1057
BspTI	CTTAAG	1 cut(s)	385
BsrDI	GCAATG	1 cut(s)	683
BsrI	ACTGG	1 cut(s)	642
BssECI	CCNNGG	3 cut(s)	230, 357, 564
BssMI	GATC	2 cut(s)	1035, 1049
BssSI	CACGAG	1 cut(s)	1404
BssT1I	CCWWGG	1 cut(s)	564
Bst2BI	CACGAG	1 cut(s)	1404
Bst2UI	CCWGG	1 cut(s)	231
Bst4CI	ACNGT	2 cut(s)	448, 779
BstAFI	CTTAAG	1 cut(s)	385
BstC8I	GCNNGC	6 cut(s)	6, 478, 819, 948, 1176, 1326
BstDEI	CTNAG	4 cut(s)	714, 747, 939, 1319
BstF5I	GGATG	1 cut(s)	989
BstHHI	GCGC	1 cut(s)	1376
BstKTI	GATC	2 cut(s)	1038, 1052
BstMAI	GTCTC	2 cut(s)	671, 1092
BstMBI	GATC	2 cut(s)	1035, 1049
BstMWI	GCNNNNNNNGC	5 cut(s)	14, 235, 1406, 1472, 1475
BstNI	CCWGG	1 cut(s)	231
BstNSI	RCATGY	3 cut(s)	915, 950, 1166
BstSCI	CCNGG	1 cut(s)	229
BstSFI	CTRYAG	3 cut(s)	309, 351, 1203
BstV1I	GCAGC	5 cut(s)	213, 1407, 1412, 1453, 1487
BstV2I	GAAGAC	2 cut(s)	371, 1139
BstX2I	RGATCY	1 cut(s)	1049
BstYI	RGATCY	1 cut(s)	1049
Bsu36I	CCTNAGG	1 cut(s)	1319
BsuI	GTATCC	1 cut(s)	76
BsuRI	GGCC	2 cut(s)	68, 496
BtsCI	GGATG	1 cut(s)	989
BtsI	GCAGTG	1 cut(s)	1197
BtsIMutI	CAGTG	3 cut(s)	298, 775, 1197
BveI	ACCTGC	1 cut(s)	172
Cac8I	GCNNGC	6 cut(s)	6, 478, 819, 948, 1176, 1326
CfoI	GCGC	1 cut(s)	1376
Cfr13I	GGNCC	1 cut(s)	1315
CviAII	CATG	6 cut(s)	110, 129, 912, 947, 1142, 1163
DdeI	CTNAG	4 cut(s)	714, 747, 939, 1319
DpnI	GATC	2 cut(s)	1037, 1051
DpnII	GATC	2 cut(s)	1035, 1049
DraI	TTTAAA	1 cut(s)	825
EciI	GGCGGA	1 cut(s)	1143
Eco130I	CCWWGG	1 cut(s)	564
Eco147I	AGGCCT	1 cut(s)	496
Eco47I	GGWCC	1 cut(s)	1315
Eco81I	CCTNAGG	1 cut(s)	1319
EcoO109I	RGGNCCY	1 cut(s)	1315
EcoRII	CCWGG	1 cut(s)	229
EcoT14I	CCWWGG	1 cut(s)	564
EcoT22I	ATGCAT	1 cut(s)	952
ErhI	CCWWGG	1 cut(s)	564
FaeI	CATG	6 cut(s)	113, 132, 915, 950, 1145, 1166
FatI	CATG	6 cut(s)	109, 128, 911, 946, 1141, 1162
Fnu4HI	GCNGC	5 cut(s)	227, 1401, 1421, 1467, 1476
FokI	GGATG	1 cut(s)	996
Fsp4HI	GCNGC	5 cut(s)	227, 1401, 1421, 1467, 1476
FspBI	CTAG	5 cut(s)	239, 477, 1122, 1274, 1325
GlaI	GCGC	1 cut(s)	1375
GluI	GCNGC	5 cut(s)	227, 1401, 1421, 1467, 1476
GsuI	CTGGAG	1 cut(s)	598
HaeIII	GGCC	2 cut(s)	68, 496
HapII	CCGG	1 cut(s)	80
HhaI	GCGC	1 cut(s)	1376
Hin1II	CATG	6 cut(s)	113, 132, 915, 950, 1145, 1166
Hin6I	GCGC	1 cut(s)	1374
HinP1I	GCGC	1 cut(s)	1374
HincII	GTYRAC	2 cut(s)	328, 1266
HindII	GTYRAC	2 cut(s)	328, 1266
HinfI	GANTC	6 cut(s)	376, 641, 738, 937, 1241, 1481
HpaI	GTTAAC	1 cut(s)	328
HpaII	CCGG	1 cut(s)	80
HphI	GGTGA	2 cut(s)	200, 848
Hpy166II	GTNNAC	3 cut(s)	328, 444, 1266
Hpy188I	TCNGA	2 cut(s)	217, 1341
Hpy188III	TCNNGA	6 cut(s)	80, 373, 577, 698, 1097, 1255
Hpy8I	GTNNAC	3 cut(s)	328, 444, 1266
HpyAV	CCTTC	8 cut(s)	129, 486, 535, 612, 862, 964, 1328, 1461
HpyCH4III	ACNGT	2 cut(s)	448, 779
HpyF10VI	GCNNNNNNNGC	5 cut(s)	14, 235, 1406, 1472, 1475
HpyF3I	CTNAG	4 cut(s)	714, 747, 939, 1319
Hsp92II	CATG	6 cut(s)	113, 132, 915, 950, 1145, 1166
HspAI	GCGC	1 cut(s)	1374
Kpn2I	TCCGGA	1 cut(s)	79
KspAI	GTTAAC	1 cut(s)	328
Kzo9I	GATC	2 cut(s)	1035, 1049
LmnI	GCTCC	3 cut(s)	194, 310, 1371
Lsp1109I	GCAGC	5 cut(s)	213, 1407, 1412, 1453, 1487
MaeI	CTAG	5 cut(s)	239, 477, 1122, 1274, 1325
MaeIII	GTNAC	3 cut(s)	293, 836, 1113
MalI	GATC	2 cut(s)	1037, 1051
MboI	GATC	2 cut(s)	1035, 1049
MboII	GAAGA	7 cut(s)	371, 416, 657, 660, 1139, 1363, 1437
MflI	RGATCY	1 cut(s)	1049
MluCI	AATT	5 cut(s)	57, 103, 342, 503, 978
MlyI	GAGTC	5 cut(s)	385, 635, 747, 931, 1235
MmeI	TCCRAC	2 cut(s)	405, 493
MnlI	CCTC	9 cut(s)	271, 352, 414, 774, 987, 1070, 1251, 1306, 1314
Mph1103I	ATGCAT	1 cut(s)	952
MroI	TCCGGA	1 cut(s)	79
MseI	TTAA	7 cut(s)	161, 327, 386, 450, 759, 824, 1284
MspA1I	CMGCKG	2 cut(s)	1466, 1478
MspCI	CTTAAG	1 cut(s)	385
MspI	CCGG	1 cut(s)	80
MspR9I	CCNGG	1 cut(s)	231
MvaI	CCWGG	1 cut(s)	231
MwoI	GCNNNNNNNGC	5 cut(s)	14, 235, 1406, 1472, 1475
NdeII	GATC	2 cut(s)	1035, 1049
NheI	GCTAGC	2 cut(s)	476, 1324
NlaIII	CATG	6 cut(s)	113, 132, 915, 950, 1145, 1166
NmeAIII	GCCGAG	1 cut(s)	382
NmuCI	GTSAC	2 cut(s)	293, 836
NsiI	ATGCAT	1 cut(s)	952
NspI	RCATGY	3 cut(s)	915, 950, 1166
PaeI	GCATGC	1 cut(s)	950
PceI	AGGCCT	1 cut(s)	496
PfeI	GAWTC	1 cut(s)	1481
PflMI	CCANNNNNTGG	1 cut(s)	1142
PkrI	GCNGC	5 cut(s)	228, 1402, 1422, 1468, 1477
PleI	GAGTC	5 cut(s)	384, 635, 746, 931, 1235
PpsI	GAGTC	5 cut(s)	384, 635, 746, 931, 1235
PpuMI	RGGWCCY	1 cut(s)	1315
PsiI	TTATAA	2 cut(s)	963, 1056
Psp5II	RGGWCCY	1 cut(s)	1315
Psp6I	CCWGG	1 cut(s)	229
PspGI	CCWGG	1 cut(s)	229
PspPI	GGNCC	1 cut(s)	1315
PspPPI	RGGWCCY	1 cut(s)	1315
PstI	CTGCAG	1 cut(s)	313
PsuI	RGATCY	1 cut(s)	1049
PvuII	CAGCTG	2 cut(s)	1466, 1478
SaqAI	TTAA	7 cut(s)	161, 327, 386, 450, 759, 824, 1284
SatI	GCNGC	5 cut(s)	227, 1401, 1421, 1467, 1476
Sau3AI	GATC	2 cut(s)	1035, 1049
Sau96I	GGNCC	1 cut(s)	1315
SbfI	CCTGCAGG	1 cut(s)	313
SchI	GAGTC	5 cut(s)	385, 635, 747, 931, 1235
ScrFI	CCNGG	1 cut(s)	231
SdaI	CCTGCAGG	1 cut(s)	313
SfcI	CTRYAG	3 cut(s)	309, 351, 1203
SinI	GGWCC	1 cut(s)	1315
SmlI	CTYRAG	3 cut(s)	373, 385, 926
SmoI	CTYRAG	3 cut(s)	373, 385, 926
SphI	GCATGC	1 cut(s)	950
Sse8387I	CCTGCAGG	1 cut(s)	313
Sse9I	AATT	5 cut(s)	57, 103, 342, 503, 978
SseBI	AGGCCT	1 cut(s)	496
SsiI	CCGC	2 cut(s)	463, 1128
SspI	AATATT	1 cut(s)	74
SspMI	CTAG	5 cut(s)	239, 477, 1122, 1274, 1325
StuI	AGGCCT	1 cut(s)	496
StyD4I	CCNGG	1 cut(s)	229
StyI	CCWWGG	1 cut(s)	564
TaaI	ACNGT	2 cut(s)	448, 779
TaqI	TCGA	5 cut(s)	55, 283, 1003, 1096, 1303
TasI	AATT	5 cut(s)	57, 103, 342, 503, 978
TfiI	GAWTC	1 cut(s)	1481
Tru1I	TTAA	7 cut(s)	161, 327, 386, 450, 759, 824, 1284
Tru9I	TTAA	7 cut(s)	161, 327, 386, 450, 759, 824, 1284
TscAI	CASTG	3 cut(s)	298, 782, 1197
TseFI	GTSAC	2 cut(s)	293, 836
TseI	GCWGC	5 cut(s)	226, 1400, 1420, 1466, 1475
Tsp45I	GTSAC	2 cut(s)	293, 836
TspDTI	ATGAA	8 cut(s)	117, 536, 560, 594, 1349, 1364, 1431, 1443
TspRI	CASTG	3 cut(s)	298, 782, 1197
Van91I	CCANNNNNTGG	1 cut(s)	1142
Vha464I	CTTAAG	1 cut(s)	385
VpaK11BI	GGWCC	1 cut(s)	1315
XapI	RAATTY	2 cut(s)	57, 342
XceI	RCATGY	3 cut(s)	915, 950, 1166
XcmI	CCANNNNNNNNNTGG	2 cut(s)	509, 1023
XspI	CTAG	5 cut(s)	239, 477, 1122, 1274, 1325
Zsp2I	ATGCAT	1 cut(s)	952

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.