Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0013104

Physical Location & Seq

Genomic Coordinates Forward (+)

340397 .. 342441

Gene Structure 2045 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG001700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGGAGATGGGTCAGCATCAGCAGACGTTCTGGTGCCACGAGTGCGACATGAGCGTGAGTCTGCCGCCGCCGACGACGACGACGAGTGTTGTCTGTCCTCACTGCTTCAGCGACCTCCTGGAGCTGATGGATTCCAGTGGCGACAATTTCCAAGCTCCAGAAGCATTCCGCCGCCCCCACGATCAGGACAACTACCGCCTCAACAGCCCAGTCCTCCAACGGCTGATCCACCGCCTCTCCGAGGACGACGTCGTCGTTCCGCCGCCCCCCGCCAATATCTACTTACTGCCGGCTTCCAAGGCGTACGTAGACGCCATCCCAACGGTGAGGATGACGTCACGTTCAATGTCGGTGTGCGCTGTTTGTAAGGAGCAATTTGCGGAGGACGCGGAGGCTAAGCAGCTGGCTTGCAACCACGTCTACCATCCTGACTGCATTCTCCCTTGGCTTTCTTCCCGAAGTTCGTGCCCCCTCTGCCGCTATCAGCTCCCCACCGACGACCACCACCACGCTCCTCCTCAACAAGACTCCCAACACCGAATTCAACGTCTTGTGCATTACCGACTTCAACTTCAACTTCAGCTCCAGCTCGACCGCTCATCCTTTAATGGTGGTTTACAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009653 GO:0009791 GO:0009826 GO:0009888 GO:0009987 GO:0010026 GO:0010154 GO:0016043 GO:0016049 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0022412 GO:0022414 GO:0030154 GO:0032446 GO:0032501 GO:0032502 GO:0032504 GO:0032989 GO:0036211 GO:0040007 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0048316 GO:0048468 GO:0048589 GO:0048608 GO:0048731 GO:0048856 GO:0048869 GO:0060560 GO:0061458 GO:0070647 GO:0071704 GO:0071840 GO:0090376 GO:0090378 GO:0090558 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2 zinc_ribbon_9

Protein Analysis

207

Amino Acids

23.62

Weight (kDa)

5.89

Isoelectric Point (pI)

81.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_19	PF14369	8 - 43	4.8e-11	zinc-ribbon
zf-rbx1	PF12678	115 - 160	8.6e-10	RING-H2 zinc finger domain
zf-RING_2	PF13639	119 - 160	3.3e-12	Ring finger domain
zf-C3HC4_2	PF13923	119 - 159	3.1e-08	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	119 - 159	1.2e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	119 - 146	3.1e-06	RING-like zinc finger
zf-RING_UBOX	PF13445	119 - 157	8.9e-06	RING-type zinc-finger

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013104)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G44330 AT3G60080
fragaria_vesca	FvH4_7g00020 FvH4_7g00020
malus_domestica	MD02G1319700.v1.1
prunus_persica	Prupe.2G002400_v2.0.a1 Prupe.8G211400_v2.0.a1
pyrus_communis	pycom02g26770
rosa_chinensis	RchiOBHm_Chr1g0313221
rosa_laevigata	RLG00000030812
rosa_multiflora	Rmu_sc0013586.1_g000001 Rmu_sc0027690.1_g000001
rosa_roxburghii	Rroxscaffold_4G00332330
rosa_rugosa	RorugPtG0001800.1
rosa_samantha	Rh1AG001800 Rh1CG004000 Rh1DG001700
rosa_wichuraiana	Rw1G000090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	251
AatII	GACGTC	2 cut(s)	252, 338
AccB1I	GGYRCC	1 cut(s)	33
AccBSI	CCGCTC	1 cut(s)	597
AccI	GTMKAC	2 cut(s)	309, 420
AccII	CGCG	1 cut(s)	389
AclWI	GGATC	1 cut(s)	220
AcsI	RAATTY	1 cut(s)	540
AcuI	CTGAAG	2 cut(s)	91, 563
AcyI	GRCGYC	3 cut(s)	249, 312, 335
AfaI	GTAC	1 cut(s)	305
AfiI	CCNNNNNNNGG	2 cut(s)	184, 241
AgsI	TTSAA	4 cut(s)	345, 545, 569, 575
AjiI	CACGTC	1 cut(s)	418
AjnI	CCWGG	1 cut(s)	117
AjuI	GAANNNNNNNTTGG	2 cut(s)	525, 557
AluBI	AGCT	6 cut(s)	124, 155, 403, 487, 583, 589
AluI	AGCT	6 cut(s)	124, 155, 403, 487, 583, 589
AlwI	GGATC	1 cut(s)	220
ApeKI	GCWGC	1 cut(s)	400
ApoI	RAATTY	1 cut(s)	540
ArsI	GACNNNNNNTTYG	2 cut(s)	532, 564
AspLEI	GCGC	1 cut(s)	359
AsuHPI	GGTGA	1 cut(s)	337
BaeGI	GKGCMC	1 cut(s)	470
BanI	GGYRCC	1 cut(s)	33
BauI	CACGAG	1 cut(s)	38
BbvI	GCAGC	1 cut(s)	412
BccI	CCATC	3 cut(s)	121, 323, 432
BceAI	ACGGC	1 cut(s)	236
BcgI	CGANNNNNNTGC	2 cut(s)	447, 481
BciT130I	CCWGG	1 cut(s)	119
BisI	GCNGC	6 cut(s)	65, 68, 172, 263, 401, 478
BlpI	GCTNAGC	1 cut(s)	396
BlsI	GCNGC	6 cut(s)	66, 69, 173, 264, 402, 479
Bme1390I	CCNGG	1 cut(s)	119
BmgBI	CACGTC	1 cut(s)	418
BmiI	GGNNCC	1 cut(s)	35
BmrFI	CCNGG	1 cut(s)	119
BmrI	ACTGGG	1 cut(s)	203
BmsI	GCATC	1 cut(s)	25
BmuI	ACTGGG	1 cut(s)	203
BpmI	CTGGAG	3 cut(s)	140, 141, 569
Bpu1102I	GCTNAGC	1 cut(s)	396
BsaAI	YACGTR	1 cut(s)	307
BsaHI	GRCGYC	3 cut(s)	249, 312, 335
BsaJI	CCNNGG	3 cut(s)	240, 297, 443
BsaXI	ACNNNNNCTCC	4 cut(s)	221, 251, 567, 597
Bsc4I	CCNNNNNNNGG	2 cut(s)	184, 241
Bse118I	RCCGGY	1 cut(s)	289
Bse1I	ACTGG	2 cut(s)	135, 209
BseBI	CCWGG	1 cut(s)	119
BseDI	CCNNGG	3 cut(s)	240, 297, 443
BseGI	GGATG	4 cut(s)	315, 336, 424, 599
BseLI	CCNNNNNNNGG	2 cut(s)	184, 241
BseNI	ACTGG	2 cut(s)	135, 209
BseRI	GAGGAG	2 cut(s)	504, 507
BseSI	GKGCMC	1 cut(s)	470
BseXI	GCAGC	1 cut(s)	412
Bsh1236I	CGCG	1 cut(s)	389
Bsh1285I	CGRYCG	1 cut(s)	595
BshNI	GGYRCC	1 cut(s)	33
BsiEI	CGRYCG	1 cut(s)	595
BsiSI	CCGG	1 cut(s)	290
BsiWI	CGTACG	1 cut(s)	303
BslI	CCNNNNNNNGG	2 cut(s)	184, 241
BsmI	GAATGC	2 cut(s)	164, 435
Bsp1286I	GDGCHC	1 cut(s)	470
Bsp143I	GATC	2 cut(s)	181, 225
Bsp1720I	GCTNAGC	1 cut(s)	396
BspFNI	CGCG	1 cut(s)	389
BspLI	GGNNCC	1 cut(s)	35
BspPI	GGATC	1 cut(s)	220
BspT107I	GGYRCC	1 cut(s)	33
BsrBI	CCGCTC	1 cut(s)	597
BsrFI	RCCGGY	1 cut(s)	289
BsrI	ACTGG	2 cut(s)	135, 209
BssAI	RCCGGY	1 cut(s)	289
BssECI	CCNNGG	3 cut(s)	240, 297, 443
BssMI	GATC	2 cut(s)	181, 225
BssNI	GRCGYC	3 cut(s)	249, 312, 335
BssSI	CACGAG	1 cut(s)	38
BssT1I	CCWWGG	2 cut(s)	297, 443
Bst2BI	CACGAG	1 cut(s)	38
Bst2UI	CCWGG	1 cut(s)	119
Bst4CI	ACNGT	2 cut(s)	325, 621
BstACI	GRCGYC	3 cut(s)	249, 312, 335
BstBAI	YACGTR	1 cut(s)	307
BstC8I	GCNNGC	3 cut(s)	291, 405, 409
BstDEI	CTNAG	1 cut(s)	396
BstENI	CCTNNNNNAGG	1 cut(s)	239
BstF5I	GGATG	4 cut(s)	315, 336, 424, 599
BstFNI	CGCG	1 cut(s)	389
BstHHI	GCGC	1 cut(s)	359
BstKTI	GATC	2 cut(s)	184, 228
BstMBI	GATC	2 cut(s)	181, 225
BstMCI	CGRYCG	1 cut(s)	595
BstMWI	GCNNNNNNNGC	7 cut(s)	42, 51, 161, 204, 299, 386, 474
BstNI	CCWGG	1 cut(s)	119
BstSCI	CCNGG	1 cut(s)	117
BstSLI	GKGCMC	1 cut(s)	470
BstSNI	TACGTA	1 cut(s)	307
BstUI	CGCG	1 cut(s)	389
BstV1I	GCAGC	1 cut(s)	412
BtrI	CACGTC	1 cut(s)	418
BtsCI	GGATG	4 cut(s)	315, 336, 424, 599
BtsI	GCAGTG	1 cut(s)	100
BtsIMutI	CAGTG	2 cut(s)	100, 142
Cac8I	GCNNGC	3 cut(s)	291, 405, 409
CfoI	GCGC	1 cut(s)	359
Cfr10I	RCCGGY	1 cut(s)	289
CseI	GACGC	2 cut(s)	320, 395
Csp6I	GTAC	1 cut(s)	304
CviAII	CATG	1 cut(s)	49
CviQI	GTAC	1 cut(s)	304
DdeI	CTNAG	1 cut(s)	396
DpnI	GATC	2 cut(s)	183, 227
DpnII	GATC	2 cut(s)	181, 225
DrdI	GACNNNNNNGTC	1 cut(s)	251
DseDI	GACNNNNNNGTC	1 cut(s)	251
EciI	GGCGGA	2 cut(s)	158, 249
Eco105I	TACGTA	1 cut(s)	307
Eco130I	CCWWGG	2 cut(s)	297, 443
Eco57I	CTGAAG	2 cut(s)	91, 563
EcoNI	CCTNNNNNAGG	1 cut(s)	239
EcoRI	GAATTC	1 cut(s)	540
EcoRII	CCWGG	1 cut(s)	117
EcoT14I	CCWWGG	2 cut(s)	297, 443
ErhI	CCWWGG	2 cut(s)	297, 443
FaeI	CATG	1 cut(s)	52
FaiI	YATR	1 cut(s)	50
FatI	CATG	1 cut(s)	48
FauI	CCCGC	1 cut(s)	277
FblI	GTMKAC	2 cut(s)	309, 420
Fnu4HI	GCNGC	6 cut(s)	65, 68, 172, 263, 401, 478
FokI	GGATG	4 cut(s)	302, 343, 411, 586
Fsp4HI	GCNGC	6 cut(s)	65, 68, 172, 263, 401, 478
GlaI	GCGC	1 cut(s)	358
GluI	GCNGC	6 cut(s)	65, 68, 172, 263, 401, 478
GsuI	CTGGAG	3 cut(s)	140, 141, 569
HapII	CCGG	1 cut(s)	290
HgaI	GACGC	2 cut(s)	320, 395
HhaI	GCGC	1 cut(s)	359
Hin1I	GRCGYC	3 cut(s)	249, 312, 335
Hin1II	CATG	1 cut(s)	52
Hin6I	GCGC	1 cut(s)	357
HinP1I	GCGC	1 cut(s)	357
HinfI	GANTC	3 cut(s)	58, 131, 527
HpaII	CCGG	1 cut(s)	290
HphI	GGTGA	1 cut(s)	337
Hpy166II	GTNNAC	3 cut(s)	310, 421, 617
Hpy188I	TCNGA	1 cut(s)	241
Hpy188III	TCNNGA	4 cut(s)	158, 185, 428, 456
Hpy8I	GTNNAC	3 cut(s)	310, 421, 617
Hpy99I	CGWCG	8 cut(s)	76, 79, 82, 85, 251, 254, 257, 500
HpyCH4III	ACNGT	2 cut(s)	325, 621
HpyCH4IV	ACGT	7 cut(s)	26, 249, 306, 335, 340, 417, 547
HpyCH4V	TGCA	3 cut(s)	411, 435, 556
HpyF10VI	GCNNNNNNNGC	7 cut(s)	42, 51, 161, 204, 299, 386, 474
HpyF3I	CTNAG	1 cut(s)	396
HpySE526I	ACGT	7 cut(s)	26, 249, 306, 335, 340, 417, 547
Hsp92I	GRCGYC	3 cut(s)	249, 312, 335
Hsp92II	CATG	1 cut(s)	52
HspAI	GCGC	1 cut(s)	357
KroI	GCCGGC	1 cut(s)	289
KroNI	GCCGGC	1 cut(s)	291
Kzo9I	GATC	2 cut(s)	181, 225
LmnI	GCTCC	6 cut(s)	121, 160, 370, 492, 517, 588
Lsp1109I	GCAGC	1 cut(s)	412
LweI	GCATC	1 cut(s)	25
MaeII	ACGT	7 cut(s)	26, 249, 306, 335, 340, 417, 547
MaeIII	GTNAC	1 cut(s)	336
MalI	GATC	2 cut(s)	183, 227
MbiI	CCGCTC	1 cut(s)	597
MboI	GATC	2 cut(s)	181, 225
MboII	GAAGA	1 cut(s)	444
MhlI	GDGCHC	1 cut(s)	470
MluCI	AATT	3 cut(s)	145, 374, 540
MlyI	GAGTC	2 cut(s)	67, 521
MmeI	TCCRAC	1 cut(s)	241
MroNI	GCCGGC	1 cut(s)	289
MseI	TTAA	1 cut(s)	606
MslI	CAYNNNNRTG	1 cut(s)	53
MspA1I	CMGCKG	1 cut(s)	403
MspI	CCGG	1 cut(s)	290
MspR9I	CCNGG	1 cut(s)	119
Mva1269I	GAATGC	2 cut(s)	164, 435
MvaI	CCWGG	1 cut(s)	119
MvnI	CGCG	1 cut(s)	389
MwoI	GCNNNNNNNGC	7 cut(s)	42, 51, 161, 204, 299, 386, 474
NaeI	GCCGGC	1 cut(s)	291
NdeII	GATC	2 cut(s)	181, 225
NgoMIV	GCCGGC	1 cut(s)	289
NlaIII	CATG	1 cut(s)	52
NlaIV	GGNNCC	1 cut(s)	35
NmuCI	GTSAC	1 cut(s)	336
PcsI	WCGNNNNNNNCGW	2 cut(s)	80, 252
PctI	GAATGC	2 cut(s)	164, 435
PdiI	GCCGGC	1 cut(s)	291
PfeI	GAWTC	1 cut(s)	131
Pfl23II	CGTACG	1 cut(s)	303
PflFI	GACNNNGTC	2 cut(s)	248, 251
PfoI	TCCNGGA	1 cut(s)	117
PkrI	GCNGC	6 cut(s)	66, 69, 173, 264, 402, 479
PleI	GAGTC	2 cut(s)	66, 521
PpsI	GAGTC	2 cut(s)	66, 521
Ppu21I	YACGTR	1 cut(s)	307
Psp6I	CCWGG	1 cut(s)	117
PspGI	CCWGG	1 cut(s)	117
PspLI	CGTACG	1 cut(s)	303
PspN4I	GGNNCC	1 cut(s)	35
PsyI	GACNNNGTC	2 cut(s)	248, 251
PvuII	CAGCTG	1 cut(s)	403
RsaI	GTAC	1 cut(s)	305
RsaNI	GTAC	1 cut(s)	304
RseI	CAYNNNNRTG	1 cut(s)	53
SaqAI	TTAA	1 cut(s)	606
SatI	GCNGC	6 cut(s)	65, 68, 172, 263, 401, 478
Sau3AI	GATC	2 cut(s)	181, 225
SchI	GAGTC	2 cut(s)	67, 521
ScrFI	CCNGG	1 cut(s)	119
SduI	GDGCHC	1 cut(s)	470
SfaNI	GCATC	1 cut(s)	25
SmiMI	CAYNNNNRTG	1 cut(s)	53
SnaBI	TACGTA	1 cut(s)	307
Sse9I	AATT	3 cut(s)	145, 374, 540
StyD4I	CCNGG	1 cut(s)	117
StyI	CCWWGG	2 cut(s)	297, 443
TaaI	ACNGT	2 cut(s)	325, 621
TaiI	ACGT	7 cut(s)	29, 252, 309, 338, 343, 420, 550
TaqI	TCGA	1 cut(s)	591
TasI	AATT	3 cut(s)	145, 374, 540
TauI	GCSGC	5 cut(s)	67, 70, 174, 265, 480
TfiI	GAWTC	1 cut(s)	131
Tru1I	TTAA	1 cut(s)	606
Tru9I	TTAA	1 cut(s)	606
TscAI	CASTG	2 cut(s)	107, 142
TseFI	GTSAC	1 cut(s)	336
TseI	GCWGC	1 cut(s)	400
Tsp45I	GTSAC	1 cut(s)	336
TspRI	CASTG	2 cut(s)	107, 142
Tth111I	GACNNNGTC	2 cut(s)	248, 251
XagI	CCTNNNNNAGG	1 cut(s)	239
XapI	RAATTY	1 cut(s)	540
XmiI	GTMKAC	2 cut(s)	309, 420
ZraI	GACGTC	2 cut(s)	250, 336

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