Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002572

Physical Location & Seq

Genomic Coordinates Reverse (-)

27613638 .. 27616996

Gene Structure 3359 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG241700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 801 bp

ATGGCCTTCGATTATAGAGAACACCTCGCCATGGAACAAAACTTCTTTGAGCCTCAGGGACACTTTGAGTCCGATGGAGATGTTTCGGTCAAGAAGTGGAAATCAATGTCAGCCCCTACTACAGTCTCGGACAATGATAGTGGCTGCTTTGAGTGCAACATATGCTTAGATTCAGCACATGAGCCAGTGGTGACACTCTGTGGTCACCTGTACTGCTGGCCTTGCATTTACAAATGGCTTCAGGTCCCGAGTGCTTCTGATGAACCAAACCAGCTGCAGCAAACCTGTCCTGTCTGTAAGGCTAACATTTCCCCATCCTCAGTGGTTCCCCTCTATGGCCGTGGTACAGGTTCAAAAGGAAAGAAACCCAATTTGGATCTCGTCGTACCACGTAGACCACCACCTAGGTTGGACACTTTGATTACATCTACTAGCCCTACATCACCTTCAAGACAGCAACTTCATTCAAATTATTTCCATGCACAAACACATCCAGAGTCGGTTTATGATCAATACAGCCCTTATTCTTACGGAGGTTATGCCACAAATTCAGAATCAGCTTATCTTGGCAGTACGATGTTGACACATTTATCCAATCCAACGATTGGAATGGTTGGAGAGTTTGTGTTTGCAAGGATTTTTGGCAGCTCAGACACAAATTTGTTTACTTATCCTTATTTGAATTCATACCCGCCCAGCAGTCCTAGGATGAGAAGACAGGAAGTTCAGCTTGACAAATCTCTTAATAGAGTCACCATCTTTCTTTTCTGCTGCTTTATTTTGTGTCTTCTCTTGTTCTGA

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

29.89

Weight (kDa)

6.22

Isoelectric Point (pI)

53.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	51 - 81	6.9e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	51 - 100	2.3e-06	Ring finger domain
zf-RING_5	PF14634	51 - 100	7.6e-06	zinc-RING finger domain
zf-C3HC4_3	PF13920	51 - 104	4.5e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	52 - 99	3.2e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	52 - 81	3.6e-08	RING-type zinc-finger
RING_XB3-XBAT31	PF24921	52 - 104	1.7e-07	E3 ubiquitin-protein ligase XB3/XBAT31 RING finger
zf-C3HC4_4	PF15227	52 - 99	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

Species Filter

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Publication-ready

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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)
AccB7I	CCANNNNNTGG	1 cut(s)	605
AccI	GTMKAC	1 cut(s)	394
AciI	CCGC	1 cut(s)	692
AclWI	GGATC	1 cut(s)	384
AcoI	YGGCCR	1 cut(s)	337
AcsI	RAATTY	3 cut(s)	547, 658, 682
AcuI	CTGAAG	1 cut(s)	224
AdeI	CACNNNGTG	1 cut(s)	200
AfaI	GTAC	4 cut(s)	212, 346, 387, 574
AfiI	CCNNNNNNNGG	3 cut(s)	31, 335, 605
AgsI	TTSAA	4 cut(s)	354, 450, 468, 682
AjuI	GAANNNNNNNTTGG	2 cut(s)	356, 388
AluBI	AGCT	4 cut(s)	274, 560, 648, 730
AluI	AGCT	4 cut(s)	274, 560, 648, 730
Alw26I	GTCTC	1 cut(s)	130
AlwI	GGATC	1 cut(s)	384
Ama87I	CYCGRG	1 cut(s)	247
AoxI	GGCC	3 cut(s)	3, 218, 337
ApeKI	GCWGC	5 cut(s)	144, 274, 277, 645, 771
ApoI	RAATTY	3 cut(s)	547, 658, 682
AspA2I	CCTAGG	2 cut(s)	404, 704
AspS9I	GGNCC	1 cut(s)	244
AsuHPI	GGTGA	4 cut(s)	197, 202, 435, 745
AvaI	CYCGRG	1 cut(s)	247
AvaII	GGWCC	1 cut(s)	244
AvrII	CCTAGG	2 cut(s)	404, 704
AxyI	CCTNAGG	1 cut(s)	54
BbsI	GAAGAC	2 cut(s)	721, 779
BbvI	GCAGC	5 cut(s)	131, 261, 289, 657, 758
BccI	CCATC	3 cut(s)	68, 322, 764
BceAI	ACGGC	1 cut(s)	324
BclI	TGATCA	1 cut(s)	508
BcoDI	GTCTC	1 cut(s)	130
BfaI	CTAG	3 cut(s)	405, 432, 705
BfmI	CTRYAG	2 cut(s)	120, 275
BisI	GCNGC	5 cut(s)	145, 275, 278, 646, 772
BlnI	CCTAGG	2 cut(s)	404, 704
BlsI	GCNGC	5 cut(s)	146, 276, 279, 647, 773
Bme18I	GGWCC	1 cut(s)	244
BmeT110I	CYCGRG	1 cut(s)	247
BmgT120I	GGNCC	1 cut(s)	244
BmiI	GGNNCC	2 cut(s)	246, 327
BpiI	GAAGAC	2 cut(s)	721, 779
BplI	GAGNNNNNCTC	2 cut(s)	9, 41
BsaAI	YACGTR	1 cut(s)	392
BsaJI	CCNNGG	4 cut(s)	30, 340, 404, 704
BsaXI	ACNNNNNCTCC	2 cut(s)	609, 639
Bsc4I	CCNNNNNNNGG	3 cut(s)	31, 335, 605
Bse1I	ACTGG	1 cut(s)	185
Bse21I	CCTNAGG	1 cut(s)	54
BseDI	CCNNGG	4 cut(s)	30, 340, 404, 704
BseGI	GGATG	3 cut(s)	314, 490, 714
BseLI	CCNNNNNNNGG	3 cut(s)	31, 335, 605
BseMII	CTCAG	3 cut(s)	68, 333, 663
BseNI	ACTGG	1 cut(s)	185
BseXI	GCAGC	5 cut(s)	131, 261, 289, 657, 758
BseYI	CCCAGC	1 cut(s)	695
BshFI	GGCC	3 cut(s)	5, 220, 339
BsiHKCI	CYCGRG	1 cut(s)	247
BslFI	GGGAC	2 cut(s)	72, 230
BslI	CCNNNNNNNGG	3 cut(s)	31, 335, 605
BsmAI	GTCTC	1 cut(s)	130
BsmFI	GGGAC	2 cut(s)	72, 230
BsnI	GGCC	3 cut(s)	5, 220, 339
BsoBI	CYCGRG	1 cut(s)	247
Bsp143I	GATC	2 cut(s)	376, 508
Bsp19I	CCATGG	1 cut(s)	30
BspACI	CCGC	1 cut(s)	692
BspANI	GGCC	3 cut(s)	5, 220, 339
BspCNI	CTCAG	3 cut(s)	67, 332, 662
BspLI	GGNNCC	2 cut(s)	246, 327
BspMAI	CTGCAG	1 cut(s)	279
BspPI	GGATC	1 cut(s)	384
BsrI	ACTGG	1 cut(s)	185
BssECI	CCNNGG	4 cut(s)	30, 340, 404, 704
BssMI	GATC	2 cut(s)	376, 508
BssT1I	CCWWGG	3 cut(s)	30, 404, 704
Bst4CI	ACNGT	1 cut(s)	124
BstAPI	GCANNNNNTGC	1 cut(s)	162
BstBAI	YACGTR	1 cut(s)	392
BstC8I	GCNNGC	1 cut(s)	218
BstDEI	CTNAG	4 cut(s)	54, 166, 319, 649
BstDSI	CCRYGG	2 cut(s)	30, 340
BstEII	GGTNACC	1 cut(s)	203
BstF5I	GGATG	3 cut(s)	314, 490, 714
BstKTI	GATC	2 cut(s)	379, 511
BstMAI	GTCTC	1 cut(s)	130
BstMBI	GATC	2 cut(s)	376, 508
BstMWI	GCNNNNNNNGC	3 cut(s)	153, 162, 222
BstPI	GGTNACC	1 cut(s)	203
BstSFI	CTRYAG	2 cut(s)	120, 275
BstV1I	GCAGC	5 cut(s)	131, 261, 289, 657, 758
BstV2I	GAAGAC	2 cut(s)	721, 779
BstX2I	RGATCY	1 cut(s)	376
BstYI	RGATCY	1 cut(s)	376
Bsu36I	CCTNAGG	1 cut(s)	54
BsuRI	GGCC	3 cut(s)	5, 220, 339
BtgI	CCRYGG	2 cut(s)	30, 340
BtsCI	GGATG	3 cut(s)	314, 490, 714
BtsIMutI	CAGTG	2 cut(s)	192, 327
Cac8I	GCNNGC	1 cut(s)	218
Cfr13I	GGNCC	1 cut(s)	244
Csp6I	GTAC	4 cut(s)	211, 345, 386, 573
CspCI	CAANNNNNGTGG	4 cut(s)	121, 156, 390, 425
CviAII	CATG	3 cut(s)	31, 179, 479
CviQI	GTAC	4 cut(s)	211, 345, 386, 573
DdeI	CTNAG	4 cut(s)	54, 166, 319, 649
DpnI	GATC	2 cut(s)	378, 510
DpnII	GATC	2 cut(s)	376, 508
DraIII	CACNNNGTG	1 cut(s)	200
EaeI	YGGCCR	1 cut(s)	337
Eco130I	CCWWGG	3 cut(s)	30, 404, 704
Eco47I	GGWCC	1 cut(s)	244
Eco57I	CTGAAG	1 cut(s)	224
Eco81I	CCTNAGG	1 cut(s)	54
Eco88I	CYCGRG	1 cut(s)	247
Eco91I	GGTNACC	1 cut(s)	203
EcoO109I	RGGNCCY	1 cut(s)	244
EcoO65I	GGTNACC	1 cut(s)	203
EcoRI	GAATTC	1 cut(s)	682
EcoT14I	CCWWGG	3 cut(s)	30, 404, 704
ErhI	CCWWGG	3 cut(s)	30, 404, 704
FaeI	CATG	3 cut(s)	34, 182, 482
FalI	AAGNNNNNCTT	2 cut(s)	714, 746
FaqI	GGGAC	2 cut(s)	72, 230
FatI	CATG	3 cut(s)	30, 178, 478
FauI	CCCGC	1 cut(s)	699
FauNDI	CATATG	1 cut(s)	161
FbaI	TGATCA	1 cut(s)	508
FblI	GTMKAC	1 cut(s)	394
Fnu4HI	GCNGC	5 cut(s)	145, 275, 278, 646, 772
FokI	GGATG	3 cut(s)	301, 477, 721
Fsp4HI	GCNGC	5 cut(s)	145, 275, 278, 646, 772
FspBI	CTAG	3 cut(s)	405, 432, 705
GluI	GCNGC	5 cut(s)	145, 275, 278, 646, 772
GsaI	CCCAGC	1 cut(s)	699
HaeIII	GGCC	3 cut(s)	5, 220, 339
Hin1II	CATG	3 cut(s)	34, 182, 482
HincII	GTYRAC	1 cut(s)	582
HindII	GTYRAC	1 cut(s)	582
HinfI	GANTC	5 cut(s)	68, 170, 497, 554, 750
HphI	GGTGA	4 cut(s)	197, 202, 435, 745
Hpy166II	GTNNAC	3 cut(s)	395, 582, 666
Hpy188I	TCNGA	6 cut(s)	73, 130, 259, 553, 652, 800
Hpy188III	TCNNGA	4 cut(s)	91, 247, 450, 494
Hpy8I	GTNNAC	3 cut(s)	395, 582, 666
Hpy99I	CGWCG	1 cut(s)	386
HpyAV	CCTTC	2 cut(s)	16, 456
HpyCH4III	ACNGT	1 cut(s)	124
HpyCH4IV	ACGT	1 cut(s)	391
HpyCH4V	TGCA	5 cut(s)	156, 225, 277, 482, 632
HpyF10VI	GCNNNNNNNGC	3 cut(s)	153, 162, 222
HpyF3I	CTNAG	4 cut(s)	54, 166, 319, 649
HpySE526I	ACGT	1 cut(s)	391
Hsp92II	CATG	3 cut(s)	34, 182, 482
Ksp22I	TGATCA	1 cut(s)	508
Kzo9I	GATC	2 cut(s)	376, 508
Lsp1109I	GCAGC	5 cut(s)	131, 261, 289, 657, 758
MaeI	CTAG	3 cut(s)	405, 432, 705
MaeII	ACGT	1 cut(s)	391
MaeIII	GTNAC	3 cut(s)	190, 203, 751
MalI	GATC	2 cut(s)	378, 510
MboI	GATC	2 cut(s)	376, 508
MboII	GAAGA	2 cut(s)	726, 779
MflI	RGATCY	1 cut(s)	376
MluCI	AATT	5 cut(s)	370, 469, 547, 658, 682
MlyI	GAGTC	3 cut(s)	77, 506, 759
MmeI	TCCRAC	3 cut(s)	390, 595, 623
MnlI	CCTC	5 cut(s)	35, 63, 328, 341, 527
MseI	TTAA	1 cut(s)	744
MspA1I	CMGCKG	1 cut(s)	274
MwoI	GCNNNNNNNGC	3 cut(s)	153, 162, 222
NcoI	CCATGG	1 cut(s)	30
NdeI	CATATG	1 cut(s)	161
NdeII	GATC	2 cut(s)	376, 508
NlaIII	CATG	3 cut(s)	34, 182, 482
NlaIV	GGNNCC	2 cut(s)	246, 327
NmuCI	GTSAC	3 cut(s)	190, 203, 751
PfeI	GAWTC	2 cut(s)	170, 554
PflMI	CCANNNNNTGG	1 cut(s)	605
PkrI	GCNGC	5 cut(s)	146, 276, 279, 647, 773
PleI	GAGTC	3 cut(s)	76, 505, 758
PpsI	GAGTC	3 cut(s)	76, 505, 758
Ppu21I	YACGTR	1 cut(s)	392
PpuMI	RGGWCCY	1 cut(s)	244
Psp5II	RGGWCCY	1 cut(s)	244
PspEI	GGTNACC	1 cut(s)	203
PspFI	CCCAGC	1 cut(s)	695
PspN4I	GGNNCC	2 cut(s)	246, 327
PspPI	GGNCC	1 cut(s)	244
PspPPI	RGGWCCY	1 cut(s)	244
PstI	CTGCAG	1 cut(s)	279
PsuI	RGATCY	1 cut(s)	376
PvuII	CAGCTG	1 cut(s)	274
RsaI	GTAC	4 cut(s)	212, 346, 387, 574
RsaNI	GTAC	4 cut(s)	211, 345, 386, 573
SaqAI	TTAA	1 cut(s)	744
SatI	GCNGC	5 cut(s)	145, 275, 278, 646, 772
Sau3AI	GATC	2 cut(s)	376, 508
Sau96I	GGNCC	1 cut(s)	244
SchI	GAGTC	3 cut(s)	77, 506, 759
SfcI	CTRYAG	2 cut(s)	120, 275
SinI	GGWCC	1 cut(s)	244
Sse9I	AATT	5 cut(s)	370, 469, 547, 658, 682
SsiI	CCGC	1 cut(s)	692
SspMI	CTAG	3 cut(s)	405, 432, 705
StyI	CCWWGG	3 cut(s)	30, 404, 704
TaaI	ACNGT	1 cut(s)	124
TaiI	ACGT	1 cut(s)	394
TaqI	TCGA	1 cut(s)	9
TaqII	GACCGA	1 cut(s)	76
TasI	AATT	5 cut(s)	370, 469, 547, 658, 682
TatI	WGTACW	1 cut(s)	210
TfiI	GAWTC	2 cut(s)	170, 554
Tru1I	TTAA	1 cut(s)	744
Tru9I	TTAA	1 cut(s)	744
TscAI	CASTG	2 cut(s)	192, 327
TseFI	GTSAC	3 cut(s)	190, 203, 751
TseI	GCWGC	5 cut(s)	144, 274, 277, 645, 771
Tsp45I	GTSAC	3 cut(s)	190, 203, 751
TspDTI	ATGAA	3 cut(s)	276, 452, 675
TspGWI	ACGGA	1 cut(s)	546
TspRI	CASTG	2 cut(s)	192, 327
Van91I	CCANNNNNTGG	1 cut(s)	605
VpaK11BI	GGWCC	1 cut(s)	244
XapI	RAATTY	3 cut(s)	547, 658, 682
XmaJI	CCTAGG	2 cut(s)	404, 704
XmiI	GTMKAC	1 cut(s)	394
XspI	CTAG	3 cut(s)	405, 432, 705

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