Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0002572

Physical Location & Seq

Genomic Coordinates Reverse (-)

27982902 .. 27985956

Gene Structure 3055 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG234800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 801 bp

ATGTTTTTACTTTATTTTATAACAGAACACCGCGCCATGGAACAAAACTTCTTTGAGCCTCAGGGACACTTTGAGTCCGATGGAGATGTTTCGGTCAAGAAGTGGAAATCAATGTCAGCCCCTACTACAGTCTCGGACAATGATAGTGGCTGCTTTGAGTGCAACATATGCTTAGATTCAGCACATGAACCAGTGGTGACACTCTGTGGTCACCTATACTGCTGGCCTTGCATTTACAAATGGCTTCAGGTCCCGAGTGCTTCTGATGAACCAAACCAGCTGCAGCAAACCTGTCCTGTCTGTAAGGCTAACATTTCCCCATCCTCAGTGGTTCCCCTCTATGGCCGTGGTACAGGTTCAAAAGGAAAGAAACCCAATTTGGATCTCGTCGTACCACGTAGACCACCACCTAGGTTGGACACTTTGATTACTAGCCCTACATCACCTTCAAGACAGCAACTTCATTCAAATTATTTCCATGCACAAACACATCCAGAGTCAGTTTATGATCAATACAGCCCTTATTCTTACGGAGGTTATGCCACAAATTCAGAATCAGCTTATCTTGGCAGTACGATGTTGACACATTTATCCAATCCAACGATTGGAATGGTTGGAGAGTTTGTGTTTGCAAGGATTTTTGGCAGCTCAGACACAAATTTGTTTACTTATCCTTATTTGAATTCATACCCGCCCAGCAGTCCTAGGATGAGAAGACAGGAAGTTCAGCTTGACAAATCTCTTAATAGAGTCACCATCTTTCTTTTCTGCTGCTTTATTTTGTGTCTTCTCTTGTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006511 GO:0006515 GO:0006807 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009611 GO:0009628 GO:0009719 GO:0009723 GO:0009725 GO:0009987 GO:0010033 GO:0010035 GO:0010243 GO:0010498 GO:0012505 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030163 GO:0031984 GO:0032446 GO:0032991 GO:0033554 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0042175 GO:0042221 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044390 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051603 GO:0051716 GO:0051788 GO:0070647 GO:0070887 GO:0071218 GO:0071310 GO:0071704 GO:0071712 GO:0098796 GO:0098827 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2 zf-C3HC4_3

Protein Analysis

266

Amino Acids

29.99

Weight (kDa)

6.43

Isoelectric Point (pI)

53.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	53 - 83	6.9e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	53 - 102	2.3e-06	Ring finger domain
zf-RING_5	PF14634	53 - 102	7.6e-06	zinc-RING finger domain
zf-C3HC4_3	PF13920	53 - 106	4.5e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	54 - 101	3.2e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	54 - 83	3.6e-08	RING-type zinc-finger
RING_XB3-XBAT31	PF24921	54 - 106	1.7e-07	E3 ubiquitin-protein ligase XB3/XBAT31 RING finger
zf-C3HC4_4	PF15227	54 - 101	3.8e-06	zinc finger of C3HC4-type, RING

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002572)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G27470
fragaria_vesca	FvH4_3g09330 FvH4_3g09330 FvH4_3g20120 FvH4_3g20120
malus_domestica	MD00G1096000.v1.1 MD03G1226000.v1.1 MD05G1313600.v1.1 MD11G1245000.v1.1
prunus_persica	Prupe.4G046100_v2.0.a1 Prupe.4G046100_v2.0.a1 Prupe.4G183300_v2.0.a1 Prupe.4G183300_v2.0.a1
pyrus_communis	pycom03g17380 pycom05g29140 pycom11g21710
rosa_chinensis	RchiOBHm_Chr5g0008261 RchiOBHm_Chr5g0033921
rosa_laevigata	RLG00000031556 RLG00000033511
rosa_multiflora	Rmu_co8308883.1_g000001 Rmu_sc0001150.1_g000012 Rmu_sc0001387.1_g000006 Rmu_sc0007228.1_g000004
rosa_roxburghii	Rroxscaffold_1G00046290 Rroxscaffold_1G00068210
rosa_rugosa	Rorug04G0434700 Rorug04G0434700 Rorug05G0143400
rosa_samantha	Rh2AG319600 Rh5AG063300 Rh5AG234200 Rh5BG059500 Rh5BG234800 Rh5CG070100 Rh5CG265100 Rh5DG059200 Rh5DG241700
rosa_wichuraiana	Rw5G005760 Rw5G021510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	20
AccB7I	CCANNNNNTGG	1 cut(s)	605
AccI	GTMKAC	1 cut(s)	400
AccII	CGCG	1 cut(s)	33
AciI	CCGC	2 cut(s)	31, 692
AclWI	GGATC	1 cut(s)	390
AcoI	YGGCCR	1 cut(s)	343
AcsI	RAATTY	3 cut(s)	547, 658, 682
AcuI	CTGAAG	1 cut(s)	230
AdeI	CACNNNGTG	1 cut(s)	206
AfaI	GTAC	3 cut(s)	352, 393, 574
AfiI	CCNNNNNNNGG	3 cut(s)	37, 341, 605
AgsI	TTSAA	4 cut(s)	360, 450, 468, 682
AjuI	GAANNNNNNNTTGG	2 cut(s)	362, 394
AluBI	AGCT	4 cut(s)	280, 560, 648, 730
AluI	AGCT	4 cut(s)	280, 560, 648, 730
Alw26I	GTCTC	1 cut(s)	136
AlwI	GGATC	1 cut(s)	390
Ama87I	CYCGRG	1 cut(s)	253
AoxI	GGCC	2 cut(s)	224, 343
ApeKI	GCWGC	5 cut(s)	150, 280, 283, 645, 771
ApoI	RAATTY	3 cut(s)	547, 658, 682
AspA2I	CCTAGG	2 cut(s)	410, 704
AspLEI	GCGC	1 cut(s)	35
AspS9I	GGNCC	1 cut(s)	250
AsuHPI	GGTGA	4 cut(s)	203, 208, 435, 745
AvaI	CYCGRG	1 cut(s)	253
AvaII	GGWCC	1 cut(s)	250
AvrII	CCTAGG	2 cut(s)	410, 704
AxyI	CCTNAGG	1 cut(s)	60
BbsI	GAAGAC	2 cut(s)	721, 779
BbvI	GCAGC	5 cut(s)	137, 267, 295, 657, 758
BccI	CCATC	3 cut(s)	74, 328, 764
BceAI	ACGGC	1 cut(s)	330
BclI	TGATCA	1 cut(s)	508
BcoDI	GTCTC	1 cut(s)	136
BfaI	CTAG	3 cut(s)	411, 432, 705
BfmI	CTRYAG	2 cut(s)	126, 281
BisI	GCNGC	5 cut(s)	151, 281, 284, 646, 772
BlnI	CCTAGG	2 cut(s)	410, 704
BlsI	GCNGC	5 cut(s)	152, 282, 285, 647, 773
Bme18I	GGWCC	1 cut(s)	250
BmeT110I	CYCGRG	1 cut(s)	253
BmgT120I	GGNCC	1 cut(s)	250
BmiI	GGNNCC	2 cut(s)	252, 333
BpiI	GAAGAC	2 cut(s)	721, 779
BsaAI	YACGTR	1 cut(s)	398
BsaJI	CCNNGG	4 cut(s)	36, 346, 410, 704
BsaXI	ACNNNNNCTCC	2 cut(s)	609, 639
Bsc4I	CCNNNNNNNGG	3 cut(s)	37, 341, 605
Bse1I	ACTGG	1 cut(s)	191
Bse21I	CCTNAGG	1 cut(s)	60
BseDI	CCNNGG	4 cut(s)	36, 346, 410, 704
BseGI	GGATG	3 cut(s)	320, 490, 714
BseLI	CCNNNNNNNGG	3 cut(s)	37, 341, 605
BseMII	CTCAG	3 cut(s)	74, 339, 663
BseNI	ACTGG	1 cut(s)	191
BseXI	GCAGC	5 cut(s)	137, 267, 295, 657, 758
BseYI	CCCAGC	1 cut(s)	695
Bsh1236I	CGCG	1 cut(s)	33
BshFI	GGCC	2 cut(s)	226, 345
BsiHKCI	CYCGRG	1 cut(s)	253
BslFI	GGGAC	2 cut(s)	78, 236
BslI	CCNNNNNNNGG	3 cut(s)	37, 341, 605
BsmAI	GTCTC	1 cut(s)	136
BsmFI	GGGAC	2 cut(s)	78, 236
BsnI	GGCC	2 cut(s)	226, 345
BsoBI	CYCGRG	1 cut(s)	253
Bsp143I	GATC	2 cut(s)	382, 508
Bsp19I	CCATGG	1 cut(s)	36
BspACI	CCGC	2 cut(s)	31, 692
BspANI	GGCC	2 cut(s)	226, 345
BspCNI	CTCAG	3 cut(s)	73, 338, 662
BspFNI	CGCG	1 cut(s)	33
BspLI	GGNNCC	2 cut(s)	252, 333
BspMAI	CTGCAG	1 cut(s)	285
BspPI	GGATC	1 cut(s)	390
BsrI	ACTGG	1 cut(s)	191
BssECI	CCNNGG	4 cut(s)	36, 346, 410, 704
BssMI	GATC	2 cut(s)	382, 508
BssT1I	CCWWGG	3 cut(s)	36, 410, 704
Bst4CI	ACNGT	1 cut(s)	130
BstAPI	GCANNNNNTGC	1 cut(s)	168
BstBAI	YACGTR	1 cut(s)	398
BstC8I	GCNNGC	1 cut(s)	224
BstDEI	CTNAG	4 cut(s)	60, 172, 325, 649
BstDSI	CCRYGG	2 cut(s)	36, 346
BstEII	GGTNACC	1 cut(s)	209
BstF5I	GGATG	3 cut(s)	320, 490, 714
BstFNI	CGCG	1 cut(s)	33
BstHHI	GCGC	1 cut(s)	35
BstKTI	GATC	2 cut(s)	385, 511
BstMAI	GTCTC	1 cut(s)	136
BstMBI	GATC	2 cut(s)	382, 508
BstMWI	GCNNNNNNNGC	3 cut(s)	159, 168, 228
BstPI	GGTNACC	1 cut(s)	209
BstSFI	CTRYAG	2 cut(s)	126, 281
BstUI	CGCG	1 cut(s)	33
BstV1I	GCAGC	5 cut(s)	137, 267, 295, 657, 758
BstV2I	GAAGAC	2 cut(s)	721, 779
BstX2I	RGATCY	1 cut(s)	382
BstYI	RGATCY	1 cut(s)	382
Bsu36I	CCTNAGG	1 cut(s)	60
BsuRI	GGCC	2 cut(s)	226, 345
BtgI	CCRYGG	2 cut(s)	36, 346
BtsCI	GGATG	3 cut(s)	320, 490, 714
BtsIMutI	CAGTG	2 cut(s)	198, 333
Cac8I	GCNNGC	1 cut(s)	224
CfoI	GCGC	1 cut(s)	35
Cfr13I	GGNCC	1 cut(s)	250
Csp6I	GTAC	3 cut(s)	351, 392, 573
CspCI	CAANNNNNGTGG	4 cut(s)	127, 162, 396, 431
CviAII	CATG	3 cut(s)	37, 185, 479
CviQI	GTAC	3 cut(s)	351, 392, 573
DdeI	CTNAG	4 cut(s)	60, 172, 325, 649
DpnI	GATC	2 cut(s)	384, 510
DpnII	GATC	2 cut(s)	382, 508
DraIII	CACNNNGTG	1 cut(s)	206
EaeI	YGGCCR	1 cut(s)	343
Eco130I	CCWWGG	3 cut(s)	36, 410, 704
Eco47I	GGWCC	1 cut(s)	250
Eco57I	CTGAAG	1 cut(s)	230
Eco81I	CCTNAGG	1 cut(s)	60
Eco88I	CYCGRG	1 cut(s)	253
Eco91I	GGTNACC	1 cut(s)	209
EcoO109I	RGGNCCY	1 cut(s)	250
EcoO65I	GGTNACC	1 cut(s)	209
EcoRI	GAATTC	1 cut(s)	682
EcoT14I	CCWWGG	3 cut(s)	36, 410, 704
ErhI	CCWWGG	3 cut(s)	36, 410, 704
FaeI	CATG	3 cut(s)	40, 188, 482
FalI	AAGNNNNNCTT	2 cut(s)	714, 746
FaqI	GGGAC	2 cut(s)	78, 236
FatI	CATG	3 cut(s)	36, 184, 478
FauI	CCCGC	1 cut(s)	699
FauNDI	CATATG	1 cut(s)	167
FbaI	TGATCA	1 cut(s)	508
FblI	GTMKAC	1 cut(s)	400
Fnu4HI	GCNGC	5 cut(s)	151, 281, 284, 646, 772
FokI	GGATG	3 cut(s)	307, 477, 721
Fsp4HI	GCNGC	5 cut(s)	151, 281, 284, 646, 772
FspBI	CTAG	3 cut(s)	411, 432, 705
GlaI	GCGC	1 cut(s)	34
GluI	GCNGC	5 cut(s)	151, 281, 284, 646, 772
GsaI	CCCAGC	1 cut(s)	699
HaeIII	GGCC	2 cut(s)	226, 345
HhaI	GCGC	1 cut(s)	35
Hin1II	CATG	3 cut(s)	40, 188, 482
Hin6I	GCGC	1 cut(s)	33
HinP1I	GCGC	1 cut(s)	33
HincII	GTYRAC	1 cut(s)	582
HindII	GTYRAC	1 cut(s)	582
HinfI	GANTC	5 cut(s)	74, 176, 497, 554, 750
HphI	GGTGA	4 cut(s)	203, 208, 435, 745
Hpy166II	GTNNAC	3 cut(s)	401, 582, 666
Hpy188I	TCNGA	6 cut(s)	79, 136, 265, 553, 652, 800
Hpy188III	TCNNGA	4 cut(s)	97, 253, 450, 494
Hpy8I	GTNNAC	3 cut(s)	401, 582, 666
Hpy99I	CGWCG	1 cut(s)	392
HpyAV	CCTTC	1 cut(s)	456
HpyCH4III	ACNGT	1 cut(s)	130
HpyCH4IV	ACGT	1 cut(s)	397
HpyCH4V	TGCA	5 cut(s)	162, 231, 283, 482, 632
HpyF10VI	GCNNNNNNNGC	3 cut(s)	159, 168, 228
HpyF3I	CTNAG	4 cut(s)	60, 172, 325, 649
HpySE526I	ACGT	1 cut(s)	397
Hsp92II	CATG	3 cut(s)	40, 188, 482
HspAI	GCGC	1 cut(s)	33
Ksp22I	TGATCA	1 cut(s)	508
Kzo9I	GATC	2 cut(s)	382, 508
Lsp1109I	GCAGC	5 cut(s)	137, 267, 295, 657, 758
MaeI	CTAG	3 cut(s)	411, 432, 705
MaeII	ACGT	1 cut(s)	397
MaeIII	GTNAC	3 cut(s)	196, 209, 751
MalI	GATC	2 cut(s)	384, 510
MboI	GATC	2 cut(s)	382, 508
MboII	GAAGA	2 cut(s)	726, 779
MflI	RGATCY	1 cut(s)	382
MluCI	AATT	5 cut(s)	376, 469, 547, 658, 682
MlyI	GAGTC	3 cut(s)	83, 506, 759
MmeI	TCCRAC	3 cut(s)	396, 595, 623
MnlI	CCTC	4 cut(s)	69, 334, 347, 527
MseI	TTAA	1 cut(s)	744
MspA1I	CMGCKG	1 cut(s)	280
MvnI	CGCG	1 cut(s)	33
MwoI	GCNNNNNNNGC	3 cut(s)	159, 168, 228
NcoI	CCATGG	1 cut(s)	36
NdeI	CATATG	1 cut(s)	167
NdeII	GATC	2 cut(s)	382, 508
NlaIII	CATG	3 cut(s)	40, 188, 482
NlaIV	GGNNCC	2 cut(s)	252, 333
NmuCI	GTSAC	3 cut(s)	196, 209, 751
PfeI	GAWTC	2 cut(s)	176, 554
PflMI	CCANNNNNTGG	1 cut(s)	605
PkrI	GCNGC	5 cut(s)	152, 282, 285, 647, 773
PleI	GAGTC	3 cut(s)	82, 505, 758
PpsI	GAGTC	3 cut(s)	82, 505, 758
Ppu21I	YACGTR	1 cut(s)	398
PpuMI	RGGWCCY	1 cut(s)	250
PsiI	TTATAA	1 cut(s)	20
Psp5II	RGGWCCY	1 cut(s)	250
PspEI	GGTNACC	1 cut(s)	209
PspFI	CCCAGC	1 cut(s)	695
PspN4I	GGNNCC	2 cut(s)	252, 333
PspPI	GGNCC	1 cut(s)	250
PspPPI	RGGWCCY	1 cut(s)	250
PstI	CTGCAG	1 cut(s)	285
PsuI	RGATCY	1 cut(s)	382
PvuII	CAGCTG	1 cut(s)	280
RsaI	GTAC	3 cut(s)	352, 393, 574
RsaNI	GTAC	3 cut(s)	351, 392, 573
SaqAI	TTAA	1 cut(s)	744
SatI	GCNGC	5 cut(s)	151, 281, 284, 646, 772
Sau3AI	GATC	2 cut(s)	382, 508
Sau96I	GGNCC	1 cut(s)	250
SchI	GAGTC	3 cut(s)	83, 506, 759
SfcI	CTRYAG	2 cut(s)	126, 281
SinI	GGWCC	1 cut(s)	250
Sse9I	AATT	5 cut(s)	376, 469, 547, 658, 682
SsiI	CCGC	2 cut(s)	31, 692
SspMI	CTAG	3 cut(s)	411, 432, 705
StyI	CCWWGG	3 cut(s)	36, 410, 704
TaaI	ACNGT	1 cut(s)	130
TaiI	ACGT	1 cut(s)	400
TaqII	GACCGA	1 cut(s)	82
TasI	AATT	5 cut(s)	376, 469, 547, 658, 682
TfiI	GAWTC	2 cut(s)	176, 554
Tru1I	TTAA	1 cut(s)	744
Tru9I	TTAA	1 cut(s)	744
TscAI	CASTG	2 cut(s)	198, 333
TseFI	GTSAC	3 cut(s)	196, 209, 751
TseI	GCWGC	5 cut(s)	150, 280, 283, 645, 771
Tsp45I	GTSAC	3 cut(s)	196, 209, 751
TspDTI	ATGAA	4 cut(s)	201, 282, 452, 675
TspGWI	ACGGA	1 cut(s)	546
TspRI	CASTG	2 cut(s)	198, 333
Van91I	CCANNNNNTGG	1 cut(s)	605
VpaK11BI	GGWCC	1 cut(s)	250
XapI	RAATTY	3 cut(s)	547, 658, 682
XmaJI	CCTAGG	2 cut(s)	410, 704
XmiI	GTMKAC	1 cut(s)	400
XspI	CTAG	3 cut(s)	411, 432, 705

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