Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0013104

Physical Location & Seq

Genomic Coordinates Forward (+)

481989 .. 484644

Gene Structure 2656 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG004000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 639 bp

ATGGAGATGGGTCATCAGCAGACGTTCTGGTGCCACGAGTGCGACATGAGCGTGAGTCTGCCGACGACGACGACGACGACGACGAGTGTTGTCTGTCCTCACTGCTTCAGCGACCTCCTGGAGCTGATGGATTCGAGTAGTGGCGACAATTTCCAAGCTCCAGAAGCATTCCGCCGCCCCCACGATCAGGACAACTACCGCCTCAACAGCCCAGTCCTCCAACGGCTGATCCACCGCCTCTCCGACTCCTCCGAGGACGACGTCGTCGTTCCGCCGCCCCCCGCCAATATCTACTTACTGCCGGCTTCCAAGGCGTACGTAGACGTCATCCCAACGGTGAGGATGACGTCACGTTCAATGTCGGTGTGCGCTGTTTGTAAGGAGCAATTTGCGGAGGACGCGGAGGCTAAGCAGCTGGCTTGCAACCACGTCTACCATCCTGACTGCATTCTCCCTTGGCTTTCTTCCCGAAGTTCGTGCCCCCTCTGCCGCTATCAGCTCCCCACCGACGACCACCACGCTAGCGCTCCTCCTCAACAAGACTCCCAACACCGAATTCAACGTCTCGTGCATTACCGACTTCAACTTCAACTTCAGCTCCAGCTCGACCGCGCATCCTTTAATGGTGGTTTACAGTAA

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

212

Amino Acids

24.01

Weight (kDa)

5.69

Isoelectric Point (pI)

77.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_19	PF14369	7 - 43	2.5e-10	zinc-ribbon
zf-rbx1	PF12678	119 - 164	1e-09	RING-H2 zinc finger domain
zf-RING_2	PF13639	123 - 164	3.4e-12	Ring finger domain
zf-C3HC4_2	PF13923	123 - 163	3.2e-08	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	123 - 163	1.2e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	123 - 150	3.2e-06	RING-like zinc finger
zf-RING_UBOX	PF13445	123 - 161	9.4e-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)	263
AatII	GACGTC	3 cut(s)	264, 327, 350
AccB1I	GGYRCC	1 cut(s)	30
AccI	GTMKAC	2 cut(s)	321, 432
AccII	CGCG	2 cut(s)	401, 612
AclWI	GGATC	1 cut(s)	223
AcsI	RAATTY	1 cut(s)	555
AcuI	CTGAAG	2 cut(s)	91, 578
AcyI	GRCGYC	3 cut(s)	261, 324, 347
AfaI	GTAC	1 cut(s)	317
AfeI	AGCGCT	1 cut(s)	526
AfiI	CCNNNNNNNGG	1 cut(s)	187
AgsI	TTSAA	4 cut(s)	357, 560, 584, 590
AjiI	CACGTC	1 cut(s)	430
AjnI	CCWGG	1 cut(s)	117
AjuI	GAANNNNNNNTTGG	2 cut(s)	540, 572
AluBI	AGCT	6 cut(s)	124, 158, 415, 499, 598, 604
AluI	AGCT	6 cut(s)	124, 158, 415, 499, 598, 604
Alw26I	GTCTC	1 cut(s)	569
AlwI	GGATC	1 cut(s)	223
Aor51HI	AGCGCT	1 cut(s)	526
ApeKI	GCWGC	1 cut(s)	412
ApoI	RAATTY	1 cut(s)	555
ArsI	GACNNNNNNTTYG	2 cut(s)	547, 579
AspLEI	GCGC	3 cut(s)	371, 527, 614
AsuHPI	GGTGA	1 cut(s)	349
AsuNHI	GCTAGC	1 cut(s)	521
BaeGI	GKGCMC	1 cut(s)	482
BanI	GGYRCC	1 cut(s)	30
BauI	CACGAG	2 cut(s)	35, 566
BbvI	GCAGC	1 cut(s)	424
BccI	CCATC	2 cut(s)	121, 444
BceAI	ACGGC	1 cut(s)	239
BcgI	CGANNNNNNTGC	2 cut(s)	459, 493
BciT130I	CCWGG	1 cut(s)	119
BcoDI	GTCTC	1 cut(s)	569
BfaI	CTAG	1 cut(s)	522
BfoI	RGCGCY	1 cut(s)	528
BisI	GCNGC	4 cut(s)	175, 275, 413, 490
BlpI	GCTNAGC	1 cut(s)	408
BlsI	GCNGC	4 cut(s)	176, 276, 414, 491
Bme1390I	CCNGG	1 cut(s)	119
BmgBI	CACGTC	1 cut(s)	430
BmiI	GGNNCC	1 cut(s)	32
BmrFI	CCNGG	1 cut(s)	119
BmrI	ACTGGG	1 cut(s)	206
BmsI	GCATC	1 cut(s)	623
BmtI	GCTAGC	1 cut(s)	525
BmuI	ACTGGG	1 cut(s)	206
BpmI	CTGGAG	3 cut(s)	140, 144, 584
Bpu1102I	GCTNAGC	1 cut(s)	408
BsaAI	YACGTR	1 cut(s)	319
BsaHI	GRCGYC	3 cut(s)	261, 324, 347
BsaJI	CCNNGG	3 cut(s)	252, 309, 455
BsaXI	ACNNNNNCTCC	4 cut(s)	224, 254, 582, 612
Bsc4I	CCNNNNNNNGG	1 cut(s)	187
Bse118I	RCCGGY	1 cut(s)	301
Bse1I	ACTGG	1 cut(s)	212
BseBI	CCWGG	1 cut(s)	119
BseDI	CCNNGG	3 cut(s)	252, 309, 455
BseGI	GGATG	4 cut(s)	327, 348, 436, 614
BseLI	CCNNNNNNNGG	1 cut(s)	187
BseNI	ACTGG	1 cut(s)	212
BseRI	GAGGAG	3 cut(s)	238, 519, 522
BseSI	GKGCMC	1 cut(s)	482
BseXI	GCAGC	1 cut(s)	424
Bsh1236I	CGCG	2 cut(s)	401, 612
Bsh1285I	CGRYCG	1 cut(s)	610
BshNI	GGYRCC	1 cut(s)	30
BsiEI	CGRYCG	1 cut(s)	610
BsiSI	CCGG	1 cut(s)	302
BsiWI	CGTACG	1 cut(s)	315
BslI	CCNNNNNNNGG	1 cut(s)	187
BsmAI	GTCTC	1 cut(s)	569
BsmBI	CGTCTC	1 cut(s)	569
BsmI	GAATGC	2 cut(s)	167, 447
Bsp1286I	GDGCHC	1 cut(s)	482
Bsp143I	GATC	2 cut(s)	184, 228
Bsp1720I	GCTNAGC	1 cut(s)	408
BspFNI	CGCG	2 cut(s)	401, 612
BspLI	GGNNCC	1 cut(s)	32
BspOI	GCTAGC	1 cut(s)	525
BspPI	GGATC	1 cut(s)	223
BspT107I	GGYRCC	1 cut(s)	30
BsrFI	RCCGGY	1 cut(s)	301
BsrI	ACTGG	1 cut(s)	212
BssAI	RCCGGY	1 cut(s)	301
BssECI	CCNNGG	3 cut(s)	252, 309, 455
BssMI	GATC	2 cut(s)	184, 228
BssNI	GRCGYC	3 cut(s)	261, 324, 347
BssSI	CACGAG	2 cut(s)	35, 566
BssT1I	CCWWGG	2 cut(s)	309, 455
Bst2BI	CACGAG	2 cut(s)	35, 566
Bst2UI	CCWGG	1 cut(s)	119
Bst4CI	ACNGT	2 cut(s)	337, 636
BstACI	GRCGYC	3 cut(s)	261, 324, 347
BstBAI	YACGTR	1 cut(s)	319
BstC8I	GCNNGC	4 cut(s)	303, 417, 421, 523
BstDEI	CTNAG	1 cut(s)	408
BstF5I	GGATG	4 cut(s)	327, 348, 436, 614
BstFNI	CGCG	2 cut(s)	401, 612
BstH2I	RGCGCY	1 cut(s)	528
BstHHI	GCGC	3 cut(s)	371, 527, 614
BstKTI	GATC	2 cut(s)	187, 231
BstMAI	GTCTC	1 cut(s)	569
BstMBI	GATC	2 cut(s)	184, 228
BstMCI	CGRYCG	1 cut(s)	610
BstMWI	GCNNNNNNNGC	7 cut(s)	39, 48, 164, 207, 311, 398, 486
BstNI	CCWGG	1 cut(s)	119
BstSCI	CCNGG	1 cut(s)	117
BstSLI	GKGCMC	1 cut(s)	482
BstSNI	TACGTA	1 cut(s)	319
BstUI	CGCG	2 cut(s)	401, 612
BstV1I	GCAGC	1 cut(s)	424
BtrI	CACGTC	1 cut(s)	430
BtsCI	GGATG	4 cut(s)	327, 348, 436, 614
BtsI	GCAGTG	1 cut(s)	100
BtsIMutI	CAGTG	1 cut(s)	100
Cac8I	GCNNGC	4 cut(s)	303, 417, 421, 523
CfoI	GCGC	3 cut(s)	371, 527, 614
Cfr10I	RCCGGY	1 cut(s)	301
CseI	GACGC	1 cut(s)	407
Csp6I	GTAC	1 cut(s)	316
CviAII	CATG	1 cut(s)	46
CviQI	GTAC	1 cut(s)	316
DdeI	CTNAG	1 cut(s)	408
DpnI	GATC	2 cut(s)	186, 230
DpnII	GATC	2 cut(s)	184, 228
DrdI	GACNNNNNNGTC	1 cut(s)	263
DseDI	GACNNNNNNGTC	1 cut(s)	263
EciI	GGCGGA	2 cut(s)	161, 261
Eco105I	TACGTA	1 cut(s)	319
Eco130I	CCWWGG	2 cut(s)	309, 455
Eco47III	AGCGCT	1 cut(s)	526
Eco57I	CTGAAG	2 cut(s)	91, 578
EcoRI	GAATTC	1 cut(s)	555
EcoRII	CCWGG	1 cut(s)	117
EcoT14I	CCWWGG	2 cut(s)	309, 455
ErhI	CCWWGG	2 cut(s)	309, 455
Esp3I	CGTCTC	1 cut(s)	569
FaeI	CATG	1 cut(s)	49
FaiI	YATR	1 cut(s)	47
FatI	CATG	1 cut(s)	45
FauI	CCCGC	1 cut(s)	289
FblI	GTMKAC	2 cut(s)	321, 432
Fnu4HI	GCNGC	4 cut(s)	175, 275, 413, 490
FokI	GGATG	4 cut(s)	314, 355, 423, 601
Fsp4HI	GCNGC	4 cut(s)	175, 275, 413, 490
FspBI	CTAG	1 cut(s)	522
GlaI	GCGC	3 cut(s)	370, 526, 613
GluI	GCNGC	4 cut(s)	175, 275, 413, 490
GsuI	CTGGAG	3 cut(s)	140, 144, 584
HaeII	RGCGCY	1 cut(s)	528
HapII	CCGG	1 cut(s)	302
HgaI	GACGC	1 cut(s)	407
HhaI	GCGC	3 cut(s)	371, 527, 614
Hin1I	GRCGYC	3 cut(s)	261, 324, 347
Hin1II	CATG	1 cut(s)	49
Hin6I	GCGC	3 cut(s)	369, 525, 612
HinP1I	GCGC	3 cut(s)	369, 525, 612
HinfI	GANTC	4 cut(s)	55, 131, 245, 542
HpaII	CCGG	1 cut(s)	302
HphI	GGTGA	1 cut(s)	349
Hpy166II	GTNNAC	3 cut(s)	322, 433, 632
Hpy188I	TCNGA	2 cut(s)	244, 253
Hpy188III	TCNNGA	4 cut(s)	161, 188, 440, 468
Hpy8I	GTNNAC	3 cut(s)	322, 433, 632
HpyCH4III	ACNGT	2 cut(s)	337, 636
HpyCH4IV	ACGT	8 cut(s)	23, 261, 318, 324, 347, 352, 429, 562
HpyCH4V	TGCA	3 cut(s)	423, 447, 571
HpyF10VI	GCNNNNNNNGC	7 cut(s)	39, 48, 164, 207, 311, 398, 486
HpyF3I	CTNAG	1 cut(s)	408
HpySE526I	ACGT	8 cut(s)	23, 261, 318, 324, 347, 352, 429, 562
Hsp92I	GRCGYC	3 cut(s)	261, 324, 347
Hsp92II	CATG	1 cut(s)	49
HspAI	GCGC	3 cut(s)	369, 525, 612
KroI	GCCGGC	1 cut(s)	301
KroNI	GCCGGC	1 cut(s)	303
Kzo9I	GATC	2 cut(s)	184, 228
LmnI	GCTCC	6 cut(s)	121, 163, 382, 504, 532, 603
Lsp1109I	GCAGC	1 cut(s)	424
LweI	GCATC	1 cut(s)	623
MaeI	CTAG	1 cut(s)	522
MaeII	ACGT	8 cut(s)	23, 261, 318, 324, 347, 352, 429, 562
MaeIII	GTNAC	1 cut(s)	348
MalI	GATC	2 cut(s)	186, 230
MboI	GATC	2 cut(s)	184, 228
MboII	GAAGA	1 cut(s)	456
MhlI	GDGCHC	1 cut(s)	482
MluCI	AATT	3 cut(s)	148, 386, 555
MlyI	GAGTC	3 cut(s)	64, 239, 536
MmeI	TCCRAC	2 cut(s)	244, 267
MroNI	GCCGGC	1 cut(s)	301
MseI	TTAA	1 cut(s)	621
MslI	CAYNNNNRTG	1 cut(s)	50
MspA1I	CMGCKG	1 cut(s)	415
MspI	CCGG	1 cut(s)	302
MspR9I	CCNGG	1 cut(s)	119
Mva1269I	GAATGC	2 cut(s)	167, 447
MvaI	CCWGG	1 cut(s)	119
MvnI	CGCG	2 cut(s)	401, 612
MwoI	GCNNNNNNNGC	7 cut(s)	39, 48, 164, 207, 311, 398, 486
NaeI	GCCGGC	1 cut(s)	303
NdeII	GATC	2 cut(s)	184, 228
NgoMIV	GCCGGC	1 cut(s)	301
NheI	GCTAGC	1 cut(s)	521
NlaIII	CATG	1 cut(s)	49
NlaIV	GGNNCC	1 cut(s)	32
NmuCI	GTSAC	1 cut(s)	348
PcsI	WCGNNNNNNNCGW	5 cut(s)	71, 74, 77, 80, 264
PctI	GAATGC	2 cut(s)	167, 447
PdiI	GCCGGC	1 cut(s)	303
PfeI	GAWTC	1 cut(s)	131
Pfl23II	CGTACG	1 cut(s)	315
PflFI	GACNNNGTC	2 cut(s)	260, 263
PfoI	TCCNGGA	1 cut(s)	117
PkrI	GCNGC	4 cut(s)	176, 276, 414, 491
PleI	GAGTC	3 cut(s)	63, 239, 536
PpsI	GAGTC	3 cut(s)	63, 239, 536
Ppu21I	YACGTR	1 cut(s)	319
Psp6I	CCWGG	1 cut(s)	117
PspGI	CCWGG	1 cut(s)	117
PspLI	CGTACG	1 cut(s)	315
PspN4I	GGNNCC	1 cut(s)	32
PsyI	GACNNNGTC	2 cut(s)	260, 263
PvuII	CAGCTG	1 cut(s)	415
RsaI	GTAC	1 cut(s)	317
RsaNI	GTAC	1 cut(s)	316
RseI	CAYNNNNRTG	1 cut(s)	50
SaqAI	TTAA	1 cut(s)	621
SatI	GCNGC	4 cut(s)	175, 275, 413, 490
Sau3AI	GATC	2 cut(s)	184, 228
SchI	GAGTC	3 cut(s)	64, 239, 536
ScrFI	CCNGG	1 cut(s)	119
SduI	GDGCHC	1 cut(s)	482
SfaNI	GCATC	1 cut(s)	623
SmiMI	CAYNNNNRTG	1 cut(s)	50
SnaBI	TACGTA	1 cut(s)	319
Sse9I	AATT	3 cut(s)	148, 386, 555
SspMI	CTAG	1 cut(s)	522
StyD4I	CCNGG	1 cut(s)	117
StyI	CCWWGG	2 cut(s)	309, 455
TaaI	ACNGT	2 cut(s)	337, 636
TaiI	ACGT	8 cut(s)	26, 264, 321, 327, 350, 355, 432, 565
TaqI	TCGA	2 cut(s)	134, 606
TasI	AATT	3 cut(s)	148, 386, 555
TauI	GCSGC	3 cut(s)	177, 277, 492
TfiI	GAWTC	1 cut(s)	131
Tru1I	TTAA	1 cut(s)	621
Tru9I	TTAA	1 cut(s)	621
TscAI	CASTG	1 cut(s)	107
TseFI	GTSAC	1 cut(s)	348
TseI	GCWGC	1 cut(s)	412
Tsp45I	GTSAC	1 cut(s)	348
TspRI	CASTG	1 cut(s)	107
Tth111I	GACNNNGTC	2 cut(s)	260, 263
XapI	RAATTY	1 cut(s)	555
XmiI	GTMKAC	2 cut(s)	321, 432
XspI	CTAG	1 cut(s)	522
ZraI	GACGTC	3 cut(s)	262, 325, 348

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