Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004758

Physical Location & Seq

Genomic Coordinates Forward (+)

57191968 .. 57196267

Gene Structure 4300 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00123330.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGCCCTGCAACTTCCTCGTCTTCGTCTTAGGCTTGGATAGCCTTATGTGGGCGGCTCTCAACTGCGGTGGCTGCACCGTTTTCCTAGAAGGAAGAGTGAGATTGGAAGCAAGTGTACCTGCAACGACGAGCTTCAATGACGAAATTGAGCGGCGCAGCGGGAGACCCAGCATGAATCATATGAGTGAAGTGAAGACTACAGCAGAAGGGGAAGTAGCAGACAAAAAGTCTTGTAAACGGTATTGGCAGCGGTTGTGGAGACTTCAAATTCCTGAAAGAATCAAGCTTTTCCTATGGCGGGCTGTGAAGGATGTACTGCCTTGTTTTGCAAACCTTGGAAAGAGACACATTCCAGTAGAGCCATTTTGTACAAGATGTGGGGTCAAGGAAGAATCTGGAGTACATGCTATATTTCAATGTAAGTTTGCTGCTAAGCACAAAGTCCGAATCAAAGCCATAAGGCCGAATTTACCTCGAAAGCTTTTAATTCCGATGAACCCTAGAATCCCAATTTCCAAAATTCAACCTCCACACTTTGAATCAATGCAAGTCACCTTGTGTAAAGCATCTACGTCCTCTCGAGCTCCAAAAGCCTTCAAGAATCACCGACAAAGGTGGCCGGAATCTTCAGTTCCGATGAAGGAAATTTCGTCCCCGACATGGCTTCTTCTCGGTCTTGCGGTGCTCACCACAGCCCGTCCCACGCTCGATGGTTACCACGTACGTGTAGAGGAGGTTGAGGTGAAGAAAGCCCACTTGGAATAG

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

RVT_1 RVT_3 zf-RVT

Protein Analysis

254

Amino Acids

28.95

Weight (kDa)

9.84

Isoelectric Point (pI)

50.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IRX15_IRX15L_GXM	PF21729	2 - 33	4.4e-09	IRX15/IRX15L/GXM
zf-RVT	PF13966	75 - 144	3.4e-14	zinc-binding in reverse transcriptase

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004758)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G26855
rosa_chinensis	RchiOBHm_Chr1g0348231 RchiOBHm_Chr2g0100661
rosa_laevigata	RLG00000001883
rosa_multiflora	Rmu_sc0000178.1_g000007 Rmu_sc0001860.1_g000018 Rmu_sc0002164.1_g000004 Rmu_sc0002680.1_g000020 Rmu_sc0003396.1_g000028 Rmu_sc0005838.1_g000009 Rmu_sc0014037.1_g000002
rosa_roxburghii	Rroxscaffold_1G00036040 Rroxscaffold_2G00123330 Rroxscaffold_6G00412120 Rroxscaffold_6G00423780
rosa_rugosa	Rorug02G0380000 Rorug04G0017800
rosa_samantha	Rh1AG210900 Rh1CG195200 Rh1DG206900 Rh2CG144900 Rh2DG144400 Rh4AG404100 Rh4BG415300 Rh4DG306300 Rh5AG130500 Rh7AG124200 Rh7CG128100 Rh7DG127800
rosa_wichuraiana	Rw7G025900 Rw7G034690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	127
AccBSI	CCGCTC	1 cut(s)	151
AciI	CCGC	7 cut(s)	53, 66, 151, 159, 250, 298, 680
AcoI	YGGCCR	1 cut(s)	617
AcsI	RAATTY	4 cut(s)	267, 466, 519, 645
AcuI	CTGAAG	1 cut(s)	612
AdeI	CACNNNGTG	1 cut(s)	558
AfaI	GTAC	5 cut(s)	117, 315, 370, 402, 723
AfiI	CCNNNNNNNGG	3 cut(s)	49, 298, 660
AflIII	ACRYGT	1 cut(s)	724
AgsI	TTSAA	6 cut(s)	136, 266, 416, 524, 539, 598
AhdI	GACNNNNNGTC	1 cut(s)	226
AjuI	GAANNNNNNNTTGG	1 cut(s)	740
AleI	CACNNNNGTG	1 cut(s)	723
AluBI	AGCT	4 cut(s)	132, 286, 481, 584
AluI	AGCT	4 cut(s)	132, 286, 481, 584
Alw21I	GWGCWC	2 cut(s)	586, 687
Alw26I	GTCTC	3 cut(s)	157, 253, 337
Ama87I	CYCGRG	1 cut(s)	579
AoxI	GGCC	2 cut(s)	461, 617
ApeKI	GCWGC	4 cut(s)	72, 156, 247, 428
ApoI	RAATTY	4 cut(s)	267, 466, 519, 645
AspLEI	GCGC	1 cut(s)	156
AsuHPI	GGTGA	4 cut(s)	544, 596, 679, 754
AvaI	CYCGRG	1 cut(s)	579
BanII	GRGCYC	1 cut(s)	586
BarI	GAAGNNNNNNTAC	2 cut(s)	99, 131
BbsI	GAAGAC	2 cut(s)	13, 200
Bbv12I	GWGCWC	2 cut(s)	586, 687
BbvI	GCAGC	4 cut(s)	59, 168, 259, 415
BccI	CCATC	1 cut(s)	704
BcgI	CGANNNNNNTGC	1 cut(s)	32
BcoDI	GTCTC	3 cut(s)	157, 253, 337
BfaI	CTAG	2 cut(s)	86, 501
BfmI	CTRYAG	1 cut(s)	198
BfuAI	ACCTGC	1 cut(s)	127
BisI	GCNGC	6 cut(s)	54, 73, 152, 157, 248, 429
BlpI	GCTNAGC	1 cut(s)	432
BlsI	GCNGC	6 cut(s)	55, 74, 153, 158, 249, 430
BmeRI	GACNNNNNGTC	1 cut(s)	226
BmeT110I	CYCGRG	1 cut(s)	579
BmsI	GCATC	1 cut(s)	575
BpiI	GAAGAC	2 cut(s)	13, 200
BpmI	CTGGAG	1 cut(s)	417
Bpu1102I	GCTNAGC	1 cut(s)	432
BsaAI	YACGTR	2 cut(s)	721, 725
BsaI	GGTCTC	1 cut(s)	157
BsaJI	CCNNGG	1 cut(s)	334
Bsc4I	CCNNNNNNNGG	3 cut(s)	49, 298, 660
Bse1I	ACTGG	1 cut(s)	353
BseDI	CCNNGG	1 cut(s)	334
BseGI	GGATG	1 cut(s)	316
BseLI	CCNNNNNNNGG	3 cut(s)	49, 298, 660
BseNI	ACTGG	1 cut(s)	353
BseRI	GAGGAG	1 cut(s)	746
BseXI	GCAGC	4 cut(s)	59, 168, 259, 415
BseYI	CCCAGC	1 cut(s)	167
BsgI	GTGCAG	1 cut(s)	58
BshFI	GGCC	2 cut(s)	463, 619
BsiHKAI	GWGCWC	2 cut(s)	586, 687
BsiHKCI	CYCGRG	1 cut(s)	579
BsiSI	CCGG	1 cut(s)	620
BsiWI	CGTACG	1 cut(s)	721
BslFI	GGGAC	2 cut(s)	637, 684
BslI	CCNNNNNNNGG	3 cut(s)	49, 298, 660
BsmAI	GTCTC	3 cut(s)	157, 253, 337
BsmFI	GGGAC	2 cut(s)	637, 684
BsnI	GGCC	2 cut(s)	463, 619
Bso31I	GGTCTC	1 cut(s)	157
BsoBI	CYCGRG	1 cut(s)	579
Bsp1286I	GDGCHC	2 cut(s)	586, 687
Bsp1407I	TGTACA	1 cut(s)	368
Bsp1720I	GCTNAGC	1 cut(s)	432
BspACI	CCGC	7 cut(s)	53, 66, 151, 159, 250, 298, 680
BspANI	GGCC	2 cut(s)	463, 619
BspMI	ACCTGC	1 cut(s)	127
BspTNI	GGTCTC	1 cut(s)	157
BsrBI	CCGCTC	1 cut(s)	151
BsrGI	TGTACA	1 cut(s)	368
BsrI	ACTGG	1 cut(s)	353
BssECI	CCNNGG	1 cut(s)	334
BssT1I	CCWWGG	1 cut(s)	334
Bst4CI	ACNGT	2 cut(s)	79, 240
Bst6I	CTCTTC	1 cut(s)	88
BstAUI	TGTACA	1 cut(s)	368
BstBAI	YACGTR	2 cut(s)	721, 725
BstC8I	GCNNGC	1 cut(s)	300
BstDEI	CTNAG	2 cut(s)	28, 432
BstEII	GGTNACC	1 cut(s)	713
BstF5I	GGATG	1 cut(s)	316
BstHHI	GCGC	1 cut(s)	156
BstMAI	GTCTC	3 cut(s)	157, 253, 337
BstMWI	GCNNNNNNNGC	3 cut(s)	39, 72, 590
BstNSI	RCATGY	1 cut(s)	407
BstPI	GGTNACC	1 cut(s)	713
BstSFI	CTRYAG	1 cut(s)	198
BstV1I	GCAGC	4 cut(s)	59, 168, 259, 415
BstV2I	GAAGAC	2 cut(s)	13, 200
BsuRI	GGCC	2 cut(s)	463, 619
BtsCI	GGATG	1 cut(s)	316
BveI	ACCTGC	1 cut(s)	127
Cac8I	GCNNGC	1 cut(s)	300
CfoI	GCGC	1 cut(s)	156
Csp6I	GTAC	5 cut(s)	116, 314, 369, 401, 722
CspCI	CAANNNNNGTGG	2 cut(s)	49, 84
CviAII	CATG	3 cut(s)	172, 404, 660
CviQI	GTAC	5 cut(s)	116, 314, 369, 401, 722
DdeI	CTNAG	2 cut(s)	28, 432
DraIII	CACNNNGTG	1 cut(s)	558
DriI	GACNNNNNGTC	1 cut(s)	226
EaeI	YGGCCR	1 cut(s)	617
Eam1104I	CTCTTC	1 cut(s)	88
Eam1105I	GACNNNNNGTC	1 cut(s)	226
EarI	CTCTTC	1 cut(s)	88
Ecl136II	GAGCTC	1 cut(s)	584
Eco130I	CCWWGG	1 cut(s)	334
Eco24I	GRGCYC	1 cut(s)	586
Eco31I	GGTCTC	1 cut(s)	157
Eco53kI	GAGCTC	1 cut(s)	584
Eco57I	CTGAAG	1 cut(s)	612
Eco88I	CYCGRG	1 cut(s)	579
Eco91I	GGTNACC	1 cut(s)	713
EcoICRI	GAGCTC	1 cut(s)	584
EcoO65I	GGTNACC	1 cut(s)	713
EcoT14I	CCWWGG	1 cut(s)	334
EcoT38I	GRGCYC	1 cut(s)	586
ErhI	CCWWGG	1 cut(s)	334
FaeI	CATG	3 cut(s)	175, 407, 663
FaiI	YATR	9 cut(s)	47, 173, 180, 182, 295, 405, 410, 458, 661
FaqI	GGGAC	2 cut(s)	637, 684
FatI	CATG	3 cut(s)	171, 403, 659
FauI	CCCGC	2 cut(s)	152, 291
FauNDI	CATATG	1 cut(s)	180
Fnu4HI	GCNGC	6 cut(s)	54, 73, 152, 157, 248, 429
FokI	GGATG	1 cut(s)	323
FriOI	GRGCYC	1 cut(s)	586
Fsp4HI	GCNGC	6 cut(s)	54, 73, 152, 157, 248, 429
FspBI	CTAG	2 cut(s)	86, 501
GlaI	GCGC	1 cut(s)	155
GluI	GCNGC	6 cut(s)	54, 73, 152, 157, 248, 429
GsaI	CCCAGC	1 cut(s)	171
GsuI	CTGGAG	1 cut(s)	417
HaeIII	GGCC	2 cut(s)	463, 619
HapII	CCGG	1 cut(s)	620
HhaI	GCGC	1 cut(s)	156
Hin1II	CATG	3 cut(s)	175, 407, 663
Hin6I	GCGC	1 cut(s)	154
HinP1I	GCGC	1 cut(s)	154
HindIII	AAGCTT	2 cut(s)	284, 479
HinfI	GANTC	8 cut(s)	175, 279, 392, 447, 504, 539, 601, 623
HpaII	CCGG	1 cut(s)	620
HphI	GGTGA	4 cut(s)	544, 596, 679, 754
Hpy166II	GTNNAC	2 cut(s)	116, 236
Hpy188I	TCNGA	3 cut(s)	446, 492, 636
Hpy188III	TCNNGA	4 cut(s)	272, 396, 579, 598
Hpy8I	GTNNAC	2 cut(s)	116, 236
Hpy99I	CGWCG	1 cut(s)	130
HpyAV	CCTTC	5 cut(s)	83, 200, 301, 604, 634
HpyCH4III	ACNGT	2 cut(s)	79, 240
HpyCH4IV	ACGT	3 cut(s)	572, 720, 724
HpyCH4V	TGCA	5 cut(s)	9, 75, 122, 329, 547
HpyF10VI	GCNNNNNNNGC	3 cut(s)	39, 72, 590
HpyF3I	CTNAG	2 cut(s)	28, 432
HpySE526I	ACGT	3 cut(s)	572, 720, 724
Hsp92II	CATG	3 cut(s)	175, 407, 663
HspAI	GCGC	1 cut(s)	154
LmnI	GCTCC	1 cut(s)	589
LpnPI	CCDG	7 cut(s)	19, 132, 181, 285, 366, 381, 633
Lsp1109I	GCAGC	4 cut(s)	59, 168, 259, 415
LweI	GCATC	1 cut(s)	575
MaeI	CTAG	2 cut(s)	86, 501
MaeII	ACGT	3 cut(s)	572, 720, 724
MaeIII	GTNAC	2 cut(s)	550, 713
MbiI	CCGCTC	1 cut(s)	151
MboII	GAAGA	7 cut(s)	13, 105, 205, 401, 618, 659, 757
MhlI	GDGCHC	2 cut(s)	586, 687
MluCI	AATT	7 cut(s)	144, 267, 466, 486, 510, 519, 645
MnlI	CCTC	7 cut(s)	26, 483, 537, 586, 724, 727, 733
MseI	TTAA	1 cut(s)	485
MslI	CAYNNNNRTG	2 cut(s)	183, 723
MspA1I	CMGCKG	2 cut(s)	159, 250
MspI	CCGG	1 cut(s)	620
MwoI	GCNNNNNNNGC	3 cut(s)	39, 72, 590
NdeI	CATATG	1 cut(s)	180
NlaIII	CATG	3 cut(s)	175, 407, 663
NmuCI	GTSAC	1 cut(s)	550
NspI	RCATGY	1 cut(s)	407
OliI	CACNNNNGTG	1 cut(s)	723
PaeR7I	CTCGAG	1 cut(s)	579
PfeI	GAWTC	8 cut(s)	175, 279, 392, 447, 504, 539, 601, 623
Pfl23II	CGTACG	1 cut(s)	721
PkrI	GCNGC	6 cut(s)	55, 74, 153, 158, 249, 430
Ppu21I	YACGTR	2 cut(s)	721, 725
Psp124BI	GAGCTC	1 cut(s)	586
PspEI	GGTNACC	1 cut(s)	713
PspFI	CCCAGC	1 cut(s)	167
PspLI	CGTACG	1 cut(s)	721
RsaI	GTAC	5 cut(s)	117, 315, 370, 402, 723
RsaNI	GTAC	5 cut(s)	116, 314, 369, 401, 722
RseI	CAYNNNNRTG	2 cut(s)	183, 723
SacI	GAGCTC	1 cut(s)	586
SaqAI	TTAA	1 cut(s)	485
SatI	GCNGC	6 cut(s)	54, 73, 152, 157, 248, 429
SduI	GDGCHC	2 cut(s)	586, 687
SfaNI	GCATC	1 cut(s)	575
SfcI	CTRYAG	1 cut(s)	198
Sfr274I	CTCGAG	1 cut(s)	579
SlaI	CTCGAG	1 cut(s)	579
SmiMI	CAYNNNNRTG	2 cut(s)	183, 723
SmlI	CTYRAG	1 cut(s)	579
SmoI	CTYRAG	1 cut(s)	579
Sse9I	AATT	7 cut(s)	144, 267, 466, 486, 510, 519, 645
SsiI	CCGC	7 cut(s)	53, 66, 151, 159, 250, 298, 680
SspMI	CTAG	2 cut(s)	86, 501
SstI	GAGCTC	1 cut(s)	586
StyI	CCWWGG	1 cut(s)	334
TaaI	ACNGT	2 cut(s)	79, 240
TaiI	ACGT	3 cut(s)	575, 723, 727
TaqI	TCGA	3 cut(s)	475, 580, 708
TaqII	GACCGA	1 cut(s)	662
TasI	AATT	7 cut(s)	144, 267, 466, 486, 510, 519, 645
TatI	WGTACW	3 cut(s)	313, 368, 400
TauI	GCSGC	2 cut(s)	56, 154
TfiI	GAWTC	8 cut(s)	175, 279, 392, 447, 504, 539, 601, 623
Tru1I	TTAA	1 cut(s)	485
Tru9I	TTAA	1 cut(s)	485
TseFI	GTSAC	1 cut(s)	550
TseI	GCWGC	4 cut(s)	72, 156, 247, 428
Tsp45I	GTSAC	1 cut(s)	550
TspDTI	ATGAA	3 cut(s)	188, 509, 653
XapI	RAATTY	4 cut(s)	267, 466, 519, 645
XceI	RCATGY	1 cut(s)	407
XhoI	CTCGAG	1 cut(s)	579
XspI	CTAG	2 cut(s)	86, 501

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