Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004808

Physical Location & Seq

Genomic Coordinates Forward (+)

42712379 .. 42716762

Gene Structure 4384 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG239900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 618 bp

ATGGCGTCTCGGCTGCAGAAGATCGAAACGGACGAAACGTTACTACTGCGAGTGACGCATTCCAACCTCAAGACCTTCTCCGCAGAAATCCGGTTCTCCCTGCAGAGCACCGTGGAGGCCGTGAAAGACAAGCTATGGCGCAAATGCGGCACTTCTGTAAATTCCATGTCTCTTCATCTCTACGACGATGCCAACACCAAAGTCGCCGATCTCGCTGACAATTCCAGACCCCTCGGCTTCTATTCCCCTCTCGACGGGTTCCGGCTACATATTATAGACCTGGACCCGTCGTCGGTGACCTCCGGCGGGTGGCTGGAGGACACGTCATTGGTGGAGAAGTACACGATTTCCCAGGAAGCTTATGAGAAACGCGATGGCACTTTTAAAAAGTTTAAGGACAAATTGGCATCTCAGAATACATCAGCTGTTGATAATAAAATACCAGACAACTACTTGGAAGACCTCTGTGTAAATATTAAGGTAGGAGATAGATGTCAAGTTGAACCAGGGGACAAAAGAGGTGTTGTTAAATTTGTCGGCCGAGCAGAATCTTTGGCTCCTGGTTTCTGGATTGGAGTTCAGTATGATGAACCATTGGGAAAGCACGATGGCATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0007275 GO:0008150 GO:0009524 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0022414 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051301 GO:0061458

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CAP_GLY Ubiquitin_2

Protein Analysis

205

Amino Acids

22.95

Weight (kDa)

5.62

Isoelectric Point (pI)

38.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ubiquitin_2	PF14560	15 - 98	1.3e-29	Ubiquitin-like domain
CAP_GLY	PF01302	161 - 204	2.7e-12	CAP-Gly domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0004808)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10220
fragaria_vesca	FvH4_4g13730
malus_domestica	MD04G1012500.v1.1
prunus_persica	Prupe.1G158700_v2.0.a1 Prupe.1G158700_v2.0.a1 Prupe.1G158700_v2.0.a1 Prupe.7G257800_v2.0.a1
pyrus_communis	pycom04g01000
rosa_chinensis	RchiOBHm_Chr4g0414381 RchiOBHm_Chr6g0280571
rosa_laevigata	RLG00000008151 RLG00000013048 RLG00000013049 RLG00000013783
rosa_multiflora	Rmu_sc0001432.1_g000007 Rmu_sc0016990.1_g000001 Rmu_sc0029306.1_g000001
rosa_roxburghii	Rroxscaffold_5G00358240 Rroxscaffold_7G00187940
rosa_rugosa	Rorug04G0127600 Rorug04G0127700 Rorug04G0127800
rosa_samantha	Rh4AG185700 Rh4BG185000 Rh4CG198300 Rh6AG245100 Rh6CG249100 Rh6DG239900
rosa_wichuraiana	Rw0G001630 Rw4G015880 Rw6G021210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	372
AciI	CCGC	3 cut(s)	81, 147, 306
AclI	AACGTT	1 cut(s)	38
AcoI	YGGCCR	1 cut(s)	538
AcsI	RAATTY	2 cut(s)	160, 530
AcyI	GRCGYC	1 cut(s)	5
AfaI	GTAC	1 cut(s)	341
AfiI	CCNNNNNNNGG	4 cut(s)	254, 292, 306, 309
AflIII	ACRYGT	1 cut(s)	321
AgsI	TTSAA	1 cut(s)	503
AhdI	GACNNNNNGTC	1 cut(s)	289
AjiI	CACGTC	1 cut(s)	324
AjnI	CCWGG	4 cut(s)	279, 351, 505, 559
AluBI	AGCT	3 cut(s)	133, 359, 425
AluI	AGCT	3 cut(s)	133, 359, 425
Alw21I	GWGCWC	1 cut(s)	110
Alw26I	GTCTC	2 cut(s)	12, 174
AoxI	GGCC	2 cut(s)	117, 538
ApeKI	GCWGC	1 cut(s)	13
ApoI	RAATTY	2 cut(s)	160, 530
AspLEI	GCGC	1 cut(s)	141
AspS9I	GGNCC	1 cut(s)	283
AsuHPI	GGTGA	1 cut(s)	307
AvaII	GGWCC	1 cut(s)	283
BbsI	GAAGAC	1 cut(s)	465
Bbv12I	GWGCWC	1 cut(s)	110
BccI	CCATC	2 cut(s)	368, 602
BceAI	ACGGC	1 cut(s)	104
BciT130I	CCWGG	4 cut(s)	281, 353, 507, 561
BcoDI	GTCTC	2 cut(s)	12, 174
BfmI	CTRYAG	2 cut(s)	14, 101
BisI	GCNGC	2 cut(s)	14, 148
BlsI	GCNGC	2 cut(s)	15, 149
Bme1390I	CCNGG	4 cut(s)	281, 353, 507, 561
Bme18I	GGWCC	1 cut(s)	283
BmeRI	GACNNNNNGTC	1 cut(s)	289
BmgBI	CACGTC	1 cut(s)	324
BmgT120I	GGNCC	1 cut(s)	283
BmiI	GGNNCC	3 cut(s)	260, 285, 558
BmrFI	CCNGG	4 cut(s)	281, 353, 507, 561
BmsI	GCATC	2 cut(s)	178, 416
BpiI	GAAGAC	1 cut(s)	465
BpmI	CTGGAG	1 cut(s)	335
BpuEI	CTTGAG	1 cut(s)	53
BsaHI	GRCGYC	1 cut(s)	5
BsaJI	CCNNGG	4 cut(s)	111, 232, 351, 506
BsaWI	WCCGGW	1 cut(s)	90
BsaXI	ACNNNNNCTCC	2 cut(s)	308, 338
Bsc4I	CCNNNNNNNGG	4 cut(s)	254, 292, 306, 309
BseBI	CCWGG	4 cut(s)	281, 353, 507, 561
BseDI	CCNNGG	4 cut(s)	111, 232, 351, 506
BseLI	CCNNNNNNNGG	4 cut(s)	254, 292, 306, 309
BseMII	CTCAG	1 cut(s)	425
BseX3I	CGGCCG	1 cut(s)	538
Bsh1236I	CGCG	1 cut(s)	372
Bsh1285I	CGRYCG	1 cut(s)	541
BshFI	GGCC	2 cut(s)	119, 540
BsiEI	CGRYCG	1 cut(s)	541
BsiHKAI	GWGCWC	1 cut(s)	110
BsiSI	CCGG	3 cut(s)	91, 262, 303
BslFI	GGGAC	1 cut(s)	524
BslI	CCNNNNNNNGG	4 cut(s)	254, 292, 306, 309
BsmAI	GTCTC	2 cut(s)	12, 174
BsmBI	CGTCTC	1 cut(s)	12
BsmFI	GGGAC	1 cut(s)	524
BsmI	GAATGC	1 cut(s)	58
BsnI	GGCC	2 cut(s)	119, 540
Bsp1286I	GDGCHC	1 cut(s)	110
Bsp143I	GATC	2 cut(s)	21, 208
BspACI	CCGC	3 cut(s)	81, 147, 306
BspANI	GGCC	2 cut(s)	119, 540
BspCNI	CTCAG	1 cut(s)	424
BspFNI	CGCG	1 cut(s)	372
BspLI	GGNNCC	3 cut(s)	260, 285, 558
BspMAI	CTGCAG	2 cut(s)	18, 105
BssECI	CCNNGG	4 cut(s)	111, 232, 351, 506
BssMI	GATC	2 cut(s)	21, 208
BssNI	GRCGYC	1 cut(s)	5
Bst2UI	CCWGG	4 cut(s)	281, 353, 507, 561
Bst4CI	ACNGT	1 cut(s)	112
Bst6I	CTCTTC	1 cut(s)	177
BstACI	GRCGYC	1 cut(s)	5
BstDEI	CTNAG	1 cut(s)	411
BstDSI	CCRYGG	1 cut(s)	111
BstEII	GGTNACC	1 cut(s)	295
BstFNI	CGCG	1 cut(s)	372
BstHHI	GCGC	1 cut(s)	141
BstKTI	GATC	2 cut(s)	24, 211
BstMAI	GTCTC	2 cut(s)	12, 174
BstMBI	GATC	2 cut(s)	21, 208
BstMCI	CGRYCG	1 cut(s)	541
BstMWI	GCNNNNNNNGC	3 cut(s)	55, 147, 212
BstNI	CCWGG	4 cut(s)	281, 353, 507, 561
BstNSI	RCATGY	1 cut(s)	616
BstPI	GGTNACC	1 cut(s)	295
BstSCI	CCNGG	4 cut(s)	279, 351, 505, 559
BstSFI	CTRYAG	2 cut(s)	14, 101
BstUI	CGCG	1 cut(s)	372
BstV2I	GAAGAC	1 cut(s)	465
BstZI	CGGCCG	1 cut(s)	538
BsuRI	GGCC	2 cut(s)	119, 540
BtgI	CCRYGG	1 cut(s)	111
BtgZI	GCGATG	1 cut(s)	387
BtrI	CACGTC	1 cut(s)	324
CfoI	GCGC	1 cut(s)	141
Cfr13I	GGNCC	1 cut(s)	283
CseI	GACGC	1 cut(s)	64
Csp6I	GTAC	1 cut(s)	340
CviAII	CATG	2 cut(s)	166, 613
CviQI	GTAC	1 cut(s)	340
DdeI	CTNAG	1 cut(s)	411
DpnI	GATC	2 cut(s)	23, 210
DpnII	GATC	2 cut(s)	21, 208
DraI	TTTAAA	1 cut(s)	385
DriI	GACNNNNNGTC	1 cut(s)	289
EaeI	YGGCCR	1 cut(s)	538
EagI	CGGCCG	1 cut(s)	538
Eam1104I	CTCTTC	1 cut(s)	177
Eam1105I	GACNNNNNGTC	1 cut(s)	289
EarI	CTCTTC	1 cut(s)	177
EclXI	CGGCCG	1 cut(s)	538
Eco47I	GGWCC	1 cut(s)	283
Eco52I	CGGCCG	1 cut(s)	538
Eco91I	GGTNACC	1 cut(s)	295
EcoO65I	GGTNACC	1 cut(s)	295
EcoRII	CCWGG	4 cut(s)	279, 351, 505, 559
Esp3I	CGTCTC	1 cut(s)	12
FaeI	CATG	2 cut(s)	169, 616
FaiI	YATR	7 cut(s)	136, 167, 270, 275, 363, 585, 614
FaqI	GGGAC	1 cut(s)	524
FatI	CATG	2 cut(s)	165, 612
FauI	CCCGC	1 cut(s)	299
Fnu4HI	GCNGC	2 cut(s)	14, 148
Fsp4HI	GCNGC	2 cut(s)	14, 148
GlaI	GCGC	1 cut(s)	140
GluI	GCNGC	2 cut(s)	14, 148
GsuI	CTGGAG	1 cut(s)	335
HaeIII	GGCC	2 cut(s)	119, 540
HapII	CCGG	3 cut(s)	91, 262, 303
HgaI	GACGC	1 cut(s)	64
HhaI	GCGC	1 cut(s)	141
Hin1I	GRCGYC	1 cut(s)	5
Hin1II	CATG	2 cut(s)	169, 616
Hin6I	GCGC	1 cut(s)	139
HinP1I	GCGC	1 cut(s)	139
HindIII	AAGCTT	1 cut(s)	357
HinfI	GANTC	1 cut(s)	548
HpaII	CCGG	3 cut(s)	91, 262, 303
HphI	GGTGA	1 cut(s)	307
Hpy166II	GTNNAC	1 cut(s)	342
Hpy188I	TCNGA	1 cut(s)	414
Hpy188III	TCNNGA	4 cut(s)	70, 225, 251, 568
Hpy8I	GTNNAC	1 cut(s)	342
Hpy99I	CGWCG	4 cut(s)	188, 257, 292, 295
HpyAV	CCTTC	1 cut(s)	85
HpyCH4III	ACNGT	1 cut(s)	112
HpyCH4IV	ACGT	2 cut(s)	38, 323
HpyCH4V	TGCA	2 cut(s)	16, 103
HpyF10VI	GCNNNNNNNGC	3 cut(s)	55, 147, 212
HpyF3I	CTNAG	1 cut(s)	411
HpySE526I	ACGT	2 cut(s)	38, 323
Hsp92I	GRCGYC	1 cut(s)	5
Hsp92II	CATG	2 cut(s)	169, 616
HspAI	GCGC	1 cut(s)	139
Kzo9I	GATC	2 cut(s)	21, 208
LmnI	GCTCC	1 cut(s)	562
LweI	GCATC	2 cut(s)	178, 416
MaeII	ACGT	2 cut(s)	38, 323
MaeIII	GTNAC	3 cut(s)	39, 52, 295
MalI	GATC	2 cut(s)	23, 210
MboI	GATC	2 cut(s)	21, 208
MboII	GAAGA	3 cut(s)	31, 164, 470
MhlI	GDGCHC	1 cut(s)	110
MluCI	AATT	4 cut(s)	160, 220, 401, 530
MmeI	TCCRAC	1 cut(s)	87
MnlI	CCTC	8 cut(s)	77, 109, 242, 258, 310, 310, 473, 512
MseI	TTAA	4 cut(s)	384, 393, 477, 528
MspA1I	CMGCKG	1 cut(s)	425
MspI	CCGG	3 cut(s)	91, 262, 303
MspR9I	CCNGG	4 cut(s)	281, 353, 507, 561
Mva1269I	GAATGC	1 cut(s)	58
MvaI	CCWGG	4 cut(s)	281, 353, 507, 561
MvnI	CGCG	1 cut(s)	372
MwoI	GCNNNNNNNGC	3 cut(s)	55, 147, 212
NdeII	GATC	2 cut(s)	21, 208
NlaIII	CATG	2 cut(s)	169, 616
NlaIV	GGNNCC	3 cut(s)	260, 285, 558
NmeAIII	GCCGAG	2 cut(s)	213, 566
NmuCI	GTSAC	2 cut(s)	52, 295
NspI	RCATGY	1 cut(s)	616
PcsI	WCGNNNNNNNCGW	2 cut(s)	30, 35
PctI	GAATGC	1 cut(s)	58
PfeI	GAWTC	1 cut(s)	548
PkrI	GCNGC	2 cut(s)	15, 149
Psp1406I	AACGTT	1 cut(s)	38
Psp6I	CCWGG	4 cut(s)	279, 351, 505, 559
PspEI	GGTNACC	1 cut(s)	295
PspGI	CCWGG	4 cut(s)	279, 351, 505, 559
PspN4I	GGNNCC	3 cut(s)	260, 285, 558
PspPI	GGNCC	1 cut(s)	283
PstI	CTGCAG	2 cut(s)	18, 105
PvuII	CAGCTG	1 cut(s)	425
RsaI	GTAC	1 cut(s)	341
RsaNI	GTAC	1 cut(s)	340
SaqAI	TTAA	4 cut(s)	384, 393, 477, 528
SatI	GCNGC	2 cut(s)	14, 148
Sau3AI	GATC	2 cut(s)	21, 208
Sau96I	GGNCC	1 cut(s)	283
ScrFI	CCNGG	4 cut(s)	281, 353, 507, 561
SduI	GDGCHC	1 cut(s)	110
SfaNI	GCATC	2 cut(s)	178, 416
SfcI	CTRYAG	2 cut(s)	14, 101
SinI	GGWCC	1 cut(s)	283
SmlI	CTYRAG	1 cut(s)	68
SmoI	CTYRAG	1 cut(s)	68
Sse9I	AATT	4 cut(s)	160, 220, 401, 530
SsiI	CCGC	3 cut(s)	81, 147, 306
SspI	AATATT	1 cut(s)	475
StyD4I	CCNGG	4 cut(s)	279, 351, 505, 559
TaaI	ACNGT	1 cut(s)	112
TaiI	ACGT	2 cut(s)	41, 326
TaqI	TCGA	2 cut(s)	24, 252
TasI	AATT	4 cut(s)	160, 220, 401, 530
TatI	WGTACW	1 cut(s)	339
TauI	GCSGC	1 cut(s)	150
TfiI	GAWTC	1 cut(s)	548
Tru1I	TTAA	4 cut(s)	384, 393, 477, 528
Tru9I	TTAA	4 cut(s)	384, 393, 477, 528
TseFI	GTSAC	2 cut(s)	52, 295
TseI	GCWGC	1 cut(s)	13
Tsp45I	GTSAC	2 cut(s)	52, 295
TspDTI	ATGAA	2 cut(s)	164, 603
TspGWI	ACGGA	1 cut(s)	44
VpaK11BI	GGWCC	1 cut(s)	283
XapI	RAATTY	2 cut(s)	160, 530
XceI	RCATGY	1 cut(s)	616

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