Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0016750

Physical Location & Seq

Genomic Coordinates Forward (+)

54809864 .. 54811429

Gene Structure 1566 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00205270.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 825 bp

ATGAAGGATTTTGTAGCTCGCTACATAATGGACGAAGACAATGAAGCTGGTTTTGAATGCAACATTTGCCTTGCCTTAGCTGAGGACCCAGTCATAACACTCTGTGGTCACCTTTACTGTTGGTCTTGTTTGGTCAAATGGCTCTTCAATTCGCAGTATTCCAACAATGAGTGTCCGATTTGCAAGTCCGACATCGAGTTCAGCAAATTAATCTTTTCTTATGGAAAGTTGAAATCGTCTGAATCCAACCCGATATCTCGGTTTGAATGTAACATTTGCTCTGGATTAGCTCAAGATCCGATTATAACACACTGTGGCCACCTCTATTGTTGGCCTTGCATCTATAGATGGCTTTCCAAGTGGAATTCAAATTCCAATTGTTGGGTTTGTAATGCTGTCATAGAGGAGAACAAATTGATCCCTCTTTATGGAAAAGGGATAAAATTGTCATCACATGATTCAAACTCAAGCTTTCGAGCTATTGCACCTGCGAGCGCTGGCAGTCTTGCTTCAACTACCAAGGTGAACTGTTTTGTACGGTGTGCATTCGATGCTAGCCGGACATTGTTTCGGTTTGGAAGATATACCATGGAGATTTTCATGACAAGGGTGTTACCACTAGTTGCAATTCTTTTGATGTTTCATCCCTCCATGCCGAGGGAAAGGAAAAGCGATTTGGTGGAGAAGATCGATGGAAGGACGTATGAGACAGTCCCTTTACGAAGAGCTATAGAGTATCAGAAGATACACATTGCTGTTGTCATAAAGAATGCTATTGGATTCTATGCCTCAACTTTTCTCATAGACGATGGAACTGCTTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

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:0006810 GO:0006886 GO:0006950 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030163 GO:0031984 GO:0032446 GO:0032527 GO:0032991 GO:0033036 GO:0033554 GO:0034613 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0042175 GO:0042221 GO:0042886 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:0045184 GO:0046907 GO:0050896 GO:0051179 GO:0051234 GO:0051603 GO:0051641 GO:0051649 GO:0051716 GO:0051788 GO:0070647 GO:0070727 GO:0070887 GO:0071218 GO:0071310 GO:0071702 GO:0071704 GO:0071705 GO:0071712 GO:0098796 GO:0098827 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_3

Protein Analysis

274

Amino Acids

31.09

Weight (kDa)

7.84

Isoelectric Point (pI)

48.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	19 - 66	2.1e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	19 - 61	2.9e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	19 - 62	2.5e-08	Ring finger domain
zf-RING_5	PF14634	19 - 62	2.2e-07	zinc-RING finger domain
zf-C3HC4	PF00097	20 - 61	7.8e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	20 - 59	6.4e-09	RING-type zinc-finger
zf-C3HC4_4	PF15227	20 - 61	5.7e-06	zinc finger of C3HC4-type, RING
zf-C3HC4_3	PF13920	88 - 135	8.2e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	89 - 130	2e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	90 - 130	7.6e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	90 - 124	8.1e-06	RING-type zinc-finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0016750)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g07980
malus_domestica	MD05G1072100.v1.1 MD10G1082500.v1.1
rosa_chinensis	RchiOBHm_Chr6g0262431
rosa_laevigata	RLG00000014429
rosa_multiflora	Rmu_co8450695.1_g000001 Rmu_sc0010965.1_g000002 Rmu_sc0018995.1_g000001
rosa_roxburghii	Rroxscaffold_177G00434460 Rroxscaffold_7G00205270
rosa_rugosa	Rorug05G0597200
rosa_samantha	Rh6BG112000 Rh6CG110100 Rh6DG099700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	305
AarI	CACCTGC	1 cut(s)	496
Acc36I	ACCTGC	1 cut(s)	496
AccB7I	CCANNNNNTGG	1 cut(s)	381
AclWI	GGATC	2 cut(s)	290, 412
AcoI	YGGCCR	1 cut(s)	316
AcsI	RAATTY	2 cut(s)	364, 370
AdeI	CACNNNGTG	2 cut(s)	104, 314
AfaI	GTAC	1 cut(s)	537
AfeI	AGCGCT	1 cut(s)	496
AfiI	CCNNNNNNNGG	3 cut(s)	381, 428, 657
AgsI	TTSAA	7 cut(s)	56, 148, 232, 266, 369, 462, 513
AhlI	ACTAGT	1 cut(s)	619
AjuI	GAANNNNNNNTTGG	2 cut(s)	659, 691
AluBI	AGCT	7 cut(s)	17, 47, 80, 290, 471, 479, 728
AluI	AGCT	7 cut(s)	17, 47, 80, 290, 471, 479, 728
Alw26I	GTCTC	1 cut(s)	701
AlwI	GGATC	2 cut(s)	290, 412
Aor51HI	AGCGCT	1 cut(s)	496
AoxI	GGCC	2 cut(s)	316, 332
ApoI	RAATTY	2 cut(s)	364, 370
AseI	ATTAAT	1 cut(s)	209
Asp700I	GAANNNNTTC	1 cut(s)	817
AspLEI	GCGC	1 cut(s)	497
AspS9I	GGNCC	1 cut(s)	85
AsuHPI	GGTGA	2 cut(s)	101, 535
AsuNHI	GCTAGC	1 cut(s)	554
AvaII	GGWCC	1 cut(s)	85
BalI	TGGCCA	1 cut(s)	318
BbsI	GAAGAC	1 cut(s)	42
BbvCI	CCTCAGC	1 cut(s)	81
BccI	CCATC	3 cut(s)	342, 686, 803
BcgI	CGANNNNNNTGC	1 cut(s)	797
BcoDI	GTCTC	1 cut(s)	701
BcuI	ACTAGT	1 cut(s)	619
BfaI	CTAG	2 cut(s)	555, 620
BfmI	CTRYAG	2 cut(s)	343, 729
BfoI	RGCGCY	1 cut(s)	498
BfuAI	ACCTGC	1 cut(s)	496
Bme18I	GGWCC	1 cut(s)	85
BmgT120I	GGNCC	1 cut(s)	85
BmiI	GGNNCC	1 cut(s)	87
BmrI	ACTGGG	1 cut(s)	83
BmsI	GCATC	2 cut(s)	348, 541
BmtI	GCTAGC	1 cut(s)	558
BmuI	ACTGGG	1 cut(s)	83
BpiI	GAAGAC	1 cut(s)	42
Bpu10I	CCTNAGC	2 cut(s)	76, 81
BpuEI	CTTGAG	2 cut(s)	276, 451
Bsa29I	ATCGAT	1 cut(s)	690
BsaJI	CCNNGG	3 cut(s)	519, 588, 656
Bsc4I	CCNNNNNNNGG	3 cut(s)	381, 428, 657
Bse1I	ACTGG	1 cut(s)	89
Bse3DI	GCAATG	1 cut(s)	750
BseCI	ATCGAT	1 cut(s)	690
BseDI	CCNNGG	3 cut(s)	519, 588, 656
BseGI	GGATG	1 cut(s)	643
BseLI	CCNNNNNNNGG	3 cut(s)	381, 428, 657
BseMI	GCAATG	1 cut(s)	750
BseMII	CTCAG	1 cut(s)	72
BseNI	ACTGG	1 cut(s)	89
BseRI	GAGGAG	1 cut(s)	419
BshFI	GGCC	2 cut(s)	318, 334
BshVI	ATCGAT	1 cut(s)	690
BsiSI	CCGG	1 cut(s)	559
BslFI	GGGAC	1 cut(s)	698
BslI	CCNNNNNNNGG	3 cut(s)	381, 428, 657
BsmAI	GTCTC	1 cut(s)	701
BsmFI	GGGAC	1 cut(s)	698
BsmI	GAATGC	3 cut(s)	62, 545, 775
BsnI	GGCC	2 cut(s)	318, 334
Bsp143I	GATC	3 cut(s)	295, 417, 687
Bsp19I	CCATGG	1 cut(s)	588
BspANI	GGCC	2 cut(s)	318, 334
BspCNI	CTCAG	1 cut(s)	73
BspDI	ATCGAT	1 cut(s)	690
BspHI	TCATGA	1 cut(s)	600
BspLI	GGNNCC	1 cut(s)	87
BspMI	ACCTGC	1 cut(s)	496
BspOI	GCTAGC	1 cut(s)	558
BspPI	GGATC	2 cut(s)	290, 412
BspQI	GCTCTTC	2 cut(s)	149, 718
BsrDI	GCAATG	1 cut(s)	750
BsrI	ACTGG	1 cut(s)	89
BssECI	CCNNGG	3 cut(s)	519, 588, 656
BssMI	GATC	3 cut(s)	295, 417, 687
BssT1I	CCWWGG	2 cut(s)	519, 588
Bst4CI	ACNGT	5 cut(s)	119, 314, 530, 540, 712
Bst6I	CTCTTC	2 cut(s)	149, 718
BstAPI	GCANNNNNTGC	2 cut(s)	66, 551
BstC8I	GCNNGC	4 cut(s)	19, 493, 499, 556
BstDEI	CTNAG	2 cut(s)	76, 81
BstDSI	CCRYGG	1 cut(s)	588
BstEII	GGTNACC	1 cut(s)	107
BstF5I	GGATG	1 cut(s)	643
BstH2I	RGCGCY	1 cut(s)	498
BstHHI	GCGC	1 cut(s)	497
BstKTI	GATC	3 cut(s)	298, 420, 690
BstMAI	GTCTC	1 cut(s)	701
BstMBI	GATC	3 cut(s)	295, 417, 687
BstMWI	GCNNNNNNNGC	2 cut(s)	66, 551
BstPI	GGTNACC	1 cut(s)	107
BstSFI	CTRYAG	2 cut(s)	343, 729
BstV2I	GAAGAC	1 cut(s)	42
BstX2I	RGATCY	1 cut(s)	295
BstYI	RGATCY	1 cut(s)	295
Bsu15I	ATCGAT	1 cut(s)	690
BsuRI	GGCC	2 cut(s)	318, 334
BsuTUI	ATCGAT	1 cut(s)	690
BtgI	CCRYGG	1 cut(s)	588
BtsCI	GGATG	1 cut(s)	643
BtsIMutI	CAGTG	1 cut(s)	310
BveI	ACCTGC	1 cut(s)	496
Cac8I	GCNNGC	4 cut(s)	19, 493, 499, 556
CciI	TCATGA	1 cut(s)	600
CfoI	GCGC	1 cut(s)	497
Cfr13I	GGNCC	1 cut(s)	85
ClaI	ATCGAT	1 cut(s)	690
Csp6I	GTAC	1 cut(s)	536
CspCI	CAANNNNNGTGG	2 cut(s)	308, 343
CviAII	CATG	4 cut(s)	455, 589, 601, 652
CviQI	GTAC	1 cut(s)	536
DdeI	CTNAG	2 cut(s)	76, 81
DpnI	GATC	3 cut(s)	297, 419, 689
DpnII	GATC	3 cut(s)	295, 417, 687
DraIII	CACNNNGTG	2 cut(s)	104, 314
EaeI	YGGCCR	1 cut(s)	316
Eam1104I	CTCTTC	2 cut(s)	149, 718
EarI	CTCTTC	2 cut(s)	149, 718
Eco130I	CCWWGG	2 cut(s)	519, 588
Eco32I	GATATC	1 cut(s)	255
Eco47I	GGWCC	1 cut(s)	85
Eco47III	AGCGCT	1 cut(s)	496
Eco91I	GGTNACC	1 cut(s)	107
EcoO109I	RGGNCCY	1 cut(s)	85
EcoO65I	GGTNACC	1 cut(s)	107
EcoRI	GAATTC	1 cut(s)	364
EcoRV	GATATC	1 cut(s)	255
EcoT14I	CCWWGG	2 cut(s)	519, 588
ErhI	CCWWGG	2 cut(s)	519, 588
FaeI	CATG	4 cut(s)	458, 592, 604, 655
FaqI	GGGAC	1 cut(s)	698
FatI	CATG	4 cut(s)	454, 588, 600, 651
FokI	GGATG	1 cut(s)	630
FspBI	CTAG	2 cut(s)	555, 620
GlaI	GCGC	1 cut(s)	496
HaeII	RGCGCY	1 cut(s)	498
HaeIII	GGCC	2 cut(s)	318, 334
HapII	CCGG	1 cut(s)	559
HhaI	GCGC	1 cut(s)	497
Hin1II	CATG	4 cut(s)	458, 592, 604, 655
Hin6I	GCGC	1 cut(s)	495
HinP1I	GCGC	1 cut(s)	495
HindIII	AAGCTT	1 cut(s)	469
HinfI	GANTC	3 cut(s)	242, 458, 780
HpaII	CCGG	1 cut(s)	559
HphI	GGTGA	2 cut(s)	101, 535
Hpy166II	GTNNAC	1 cut(s)	526
Hpy188I	TCNGA	5 cut(s)	177, 190, 241, 300, 741
Hpy188III	TCNNGA	3 cut(s)	282, 293, 601
Hpy8I	GTNNAC	1 cut(s)	526
HpyAV	CCTTC	1 cut(s)	690
HpyCH4III	ACNGT	5 cut(s)	119, 314, 530, 540, 712
HpyCH4IV	ACGT	1 cut(s)	701
HpyCH4V	TGCA	6 cut(s)	60, 183, 339, 485, 545, 626
HpyF10VI	GCNNNNNNNGC	2 cut(s)	66, 551
HpyF3I	CTNAG	2 cut(s)	76, 81
HpySE526I	ACGT	1 cut(s)	701
Hsp92II	CATG	4 cut(s)	458, 592, 604, 655
HspAI	GCGC	1 cut(s)	495
Kzo9I	GATC	3 cut(s)	295, 417, 687
LguI	GCTCTTC	2 cut(s)	149, 718
LpnPI	CCDG	6 cut(s)	33, 102, 267, 483, 501, 572
LweI	GCATC	2 cut(s)	348, 541
MaeI	CTAG	2 cut(s)	555, 620
MaeII	ACGT	1 cut(s)	701
MaeIII	GTNAC	3 cut(s)	107, 269, 612
MalI	GATC	3 cut(s)	297, 419, 689
MboI	GATC	3 cut(s)	295, 417, 687
MboII	GAAGA	6 cut(s)	47, 136, 591, 697, 735, 754
MfeI	CAATTG	1 cut(s)	376
MflI	RGATCY	1 cut(s)	295
MlsI	TGGCCA	1 cut(s)	318
MluCI	AATT	8 cut(s)	148, 206, 364, 370, 376, 413, 443, 627
MluNI	TGGCCA	1 cut(s)	318
MmeI	TCCRAC	3 cut(s)	186, 213, 270
MnlI	CCTC	7 cut(s)	76, 332, 397, 432, 651, 658, 799
Mox20I	TGGCCA	1 cut(s)	318
MroXI	GAANNNNTTC	1 cut(s)	817
MscI	TGGCCA	1 cut(s)	318
MseI	TTAA	2 cut(s)	209, 823
Msp20I	TGGCCA	1 cut(s)	318
MspI	CCGG	1 cut(s)	559
MunI	CAATTG	1 cut(s)	376
Mva1269I	GAATGC	3 cut(s)	62, 545, 775
MwoI	GCNNNNNNNGC	2 cut(s)	66, 551
NcoI	CCATGG	1 cut(s)	588
NdeII	GATC	3 cut(s)	295, 417, 687
NheI	GCTAGC	1 cut(s)	554
NlaIII	CATG	4 cut(s)	458, 592, 604, 655
NlaIV	GGNNCC	1 cut(s)	87
NmeAIII	GCCGAG	1 cut(s)	681
NmuCI	GTSAC	1 cut(s)	107
PagI	TCATGA	1 cut(s)	600
PaqCI	CACCTGC	1 cut(s)	496
PciSI	GCTCTTC	2 cut(s)	149, 718
PctI	GAATGC	3 cut(s)	62, 545, 775
PdmI	GAANNNNTTC	1 cut(s)	817
PfeI	GAWTC	3 cut(s)	242, 458, 780
PflFI	GACNNNGTC	1 cut(s)	89
PflMI	CCANNNNNTGG	1 cut(s)	381
PpuMI	RGGWCCY	1 cut(s)	85
PshBI	ATTAAT	1 cut(s)	209
PsiI	TTATAA	1 cut(s)	305
Psp5II	RGGWCCY	1 cut(s)	85
PspEI	GGTNACC	1 cut(s)	107
PspN4I	GGNNCC	1 cut(s)	87
PspPI	GGNCC	1 cut(s)	85
PspPPI	RGGWCCY	1 cut(s)	85
PsuI	RGATCY	1 cut(s)	295
PsyI	GACNNNGTC	1 cut(s)	89
RsaI	GTAC	1 cut(s)	537
RsaNI	GTAC	1 cut(s)	536
SapI	GCTCTTC	2 cut(s)	149, 718
SaqAI	TTAA	2 cut(s)	209, 823
Sau3AI	GATC	3 cut(s)	295, 417, 687
Sau96I	GGNCC	1 cut(s)	85
SfaNI	GCATC	2 cut(s)	348, 541
SfcI	CTRYAG	2 cut(s)	343, 729
SinI	GGWCC	1 cut(s)	85
SmlI	CTYRAG	2 cut(s)	291, 466
SmoI	CTYRAG	2 cut(s)	291, 466
SpeI	ACTAGT	1 cut(s)	619
Sse9I	AATT	8 cut(s)	148, 206, 364, 370, 376, 413, 443, 627
SspMI	CTAG	2 cut(s)	555, 620
StyI	CCWWGG	2 cut(s)	519, 588
TaaI	ACNGT	5 cut(s)	119, 314, 530, 540, 712
TaiI	ACGT	1 cut(s)	704
TaqI	TCGA	4 cut(s)	195, 475, 549, 690
TasI	AATT	8 cut(s)	148, 206, 364, 370, 376, 413, 443, 627
TfiI	GAWTC	3 cut(s)	242, 458, 780
Tru1I	TTAA	2 cut(s)	209, 823
Tru9I	TTAA	2 cut(s)	209, 823
TscAI	CASTG	1 cut(s)	317
TseFI	GTSAC	1 cut(s)	107
Tsp45I	GTSAC	1 cut(s)	107
TspDTI	ATGAA	4 cut(s)	17, 57, 589, 632
TspRI	CASTG	1 cut(s)	317
Tth111I	GACNNNGTC	1 cut(s)	89
Van91I	CCANNNNNTGG	1 cut(s)	381
VpaK11BI	GGWCC	1 cut(s)	85
VspI	ATTAAT	1 cut(s)	209
XapI	RAATTY	2 cut(s)	364, 370
XmnI	GAANNNNTTC	1 cut(s)	817
XspI	CTAG	2 cut(s)	555, 620

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