Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0012826

Physical Location & Seq

Genomic Coordinates Reverse (-)

60572402 .. 60575845

Gene Structure 3444 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG423000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGCTGGTGTTGATGTACTGCATGATATATGTGATTCGAGTTTAAGAGGTTGTCCTCCAGGTATGGCAAGTGGTTTTGGGGATTCAGCGAGCAGGCCATCCCAATCACAAGGGCCTTCTTTCTCCAGCAGTAACGCTAATAACGGGGATGCTGGTAATTTCGAATGCAATATCTGCTTTGACTTAGCCCAAGACCCAATTGTTACCCTATGCGGCCATCTTTTCTGCTGGCCGTGCCTTTACAAATGGCTCCACATTCACTCCCATTCTCAGGAATGCCCTGTTTGCAAAGCCGTCGTGAAGGAGGAGACTTTGGTCCCCTTGTATGGTAGGGGAAAGACATCTACTGACCCAAGATCAAGGTCAATTCCTGGAGTTAATATTCCAAATCGTCCAGCGGGGCAAAGGCCTGAAACAGCTCCTCCACCAGAACAAAACCATTTCGCCCAACGTGGGTTTGGATTCATGGGAGGTTTGGGAGGGTTTGCTCCACCAATTGCAACCACAACAAGGTTTGGCAATTTCACCTTCTCTGCAGCTTTTGGTGGCCTTTTCCCGTCCTTGTTAAATTTTCAGATGCATGGATTTCCTGATGCTCCCGTGTATGGTACAAGTGCTGGATTTCATCATGGGTTTCATAATACAGTTCATGGCCCCCATGGACATAGATACAATTTGCGACCGGGTCCTCGTGTGGGTCGTCCAGCTGTGGTTCAAGATTATTACCTGAAGATGTTGATTATGTTTGTTGTAGCTTGTGCGCTTATGGCTCTTTTGTGGCAATAG

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:0005634 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006511 GO:0006515 GO:0006807 GO:0006928 GO:0006950 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0012505 GO:0016020 GO:0016477 GO:0016567 GO:0016740 GO:0018996 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030054 GO:0030154 GO:0030163 GO:0031984 GO:0032446 GO:0032501 GO:0032502 GO:0032991 GO:0033554 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0040011 GO:0040039 GO:0042175 GO:0042221 GO:0042303 GO:0042692 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043292 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:0044449 GO:0044464 GO:0048468 GO:0048856 GO:0048869 GO:0048870 GO:0050896 GO:0051146 GO:0051179 GO:0051603 GO:0051674 GO:0051716 GO:0051788 GO:0055001 GO:0055002 GO:0055120 GO:0061061 GO:0061630 GO:0061659 GO:0070647 GO:0070887 GO:0071218 GO:0071310 GO:0071704 GO:0071712 GO:0098796 GO:0098827 GO:0099080 GO:0099081 GO:0099512 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

261

Amino Acids

28.2

Weight (kDa)

8.07

Isoelectric Point (pI)

58.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	55 - 96	1e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	55 - 97	2.7e-08	Ring finger domain
zf-C3HC4_3	PF13920	55 - 101	1e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_5	PF14634	55 - 97	1.6e-07	zinc-RING finger domain
zf-C3HC4	PF00097	56 - 96	7.8e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	56 - 94	2.3e-07	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)

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Orthologous Genes (Group: OG0012826)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19310
fragaria_vesca	FvH4_2g40351 FvH4_2g40351 FvH4_2g40351
malus_domestica	MD08G1036700.v1.1
prunus_persica	Prupe.1G384000_v2.0.a1
pyrus_communis	pycom08g02930 pycom15g02870
rosa_chinensis	RchiOBHm_Chr6g0300391
rosa_laevigata	RLG00000011342
rosa_multiflora	Rmu_sc0001670.1_g000013
rosa_roxburghii	Rroxscaffold_7G00167840
rosa_rugosa	Rorug06G0295600
rosa_samantha	Rh6AG408300 Rh6BG415600 Rh6CG423000 Rh6DG408600
rosa_wichuraiana	Rw6G035710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	213, 398
AcoI	YGGCCR	2 cut(s)	214, 230
AcsI	RAATTY	1 cut(s)	568
AcuI	CTGAAG	1 cut(s)	749
AfaI	GTAC	2 cut(s)	18, 610
AfiI	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 510, 605, 695
AgsI	TTSAA	1 cut(s)	716
AjnI	CCWGG	2 cut(s)	58, 370
AluBI	AGCT	4 cut(s)	419, 539, 707, 755
AluI	AGCT	4 cut(s)	419, 539, 707, 755
Alw26I	GTCTC	1 cut(s)	302
AoxI	GGCC	7 cut(s)	95, 113, 214, 230, 407, 547, 652
ApeKI	GCWGC	1 cut(s)	536
ApoI	RAATTY	1 cut(s)	568
AspLEI	GCGC	1 cut(s)	763
AspS9I	GGNCC	4 cut(s)	113, 316, 653, 686
AsuC2I	CCSGG	1 cut(s)	684
AsuHPI	GGTGA	1 cut(s)	517
AsuII	TTCGAA	1 cut(s)	162
AvaII	GGWCC	2 cut(s)	316, 686
BauI	CACGAG	1 cut(s)	690
BbvI	GCAGC	1 cut(s)	548
BccI	CCATC	2 cut(s)	106, 225
BceAI	ACGGC	2 cut(s)	217, 278
BcgI	CGANNNNNNTGC	2 cut(s)	277, 311
BciT130I	CCWGG	2 cut(s)	60, 372
BcnI	CCSGG	1 cut(s)	684
BcoDI	GTCTC	1 cut(s)	302
BfmI	CTRYAG	1 cut(s)	534
BisI	GCNGC	2 cut(s)	214, 537
BlsI	GCNGC	2 cut(s)	215, 538
Bme1390I	CCNGG	3 cut(s)	60, 372, 684
Bme18I	GGWCC	2 cut(s)	316, 686
BmgT120I	GGNCC	4 cut(s)	113, 316, 653, 686
BmiI	GGNNCC	4 cut(s)	251, 318, 655, 687
BmrFI	CCNGG	3 cut(s)	60, 372, 684
BmsI	GCATC	3 cut(s)	139, 567, 583
BoxI	GACNNNNGTC	1 cut(s)	314
BpmI	CTGGAG	3 cut(s)	42, 109, 393
Bpu14I	TTCGAA	1 cut(s)	162
BpuMI	CCSGG	1 cut(s)	684
BsaJI	CCNNGG	1 cut(s)	658
BsaXI	ACNNNNNCTCC	4 cut(s)	245, 275, 406, 436
Bsc4I	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 510, 605, 695
BseBI	CCWGG	2 cut(s)	60, 372
BseDI	CCNNGG	1 cut(s)	658
BseGI	GGATG	2 cut(s)	98, 154
BseLI	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 510, 605, 695
BseMII	CTCAG	1 cut(s)	284
BseRI	GAGGAG	2 cut(s)	320, 411
BseXI	GCAGC	1 cut(s)	548
Bsh1285I	CGRYCG	1 cut(s)	683
BshFI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 549, 654
BsiEI	CGRYCG	1 cut(s)	683
BsiSI	CCGG	1 cut(s)	683
BslFI	GGGAC	1 cut(s)	302
BslI	CCNNNNNNNGG	6 cut(s)	271, 326, 453, 510, 605, 695
BsmAI	GTCTC	1 cut(s)	302
BsmFI	GGGAC	1 cut(s)	302
BsmI	GAATGC	2 cut(s)	170, 281
BsnI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 549, 654
Bsp119I	TTCGAA	1 cut(s)	162
Bsp143I	GATC	1 cut(s)	356
Bsp19I	CCATGG	1 cut(s)	658
BspACI	CCGC	2 cut(s)	213, 398
BspANI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 549, 654
BspCNI	CTCAG	1 cut(s)	283
BspLI	GGNNCC	4 cut(s)	251, 318, 655, 687
BspMAI	CTGCAG	1 cut(s)	538
BspT104I	TTCGAA	1 cut(s)	162
BssECI	CCNNGG	1 cut(s)	658
BssMI	GATC	1 cut(s)	356
BssSI	CACGAG	1 cut(s)	690
BssT1I	CCWWGG	1 cut(s)	658
Bst2BI	CACGAG	1 cut(s)	690
Bst2UI	CCWGG	2 cut(s)	60, 372
Bst4CI	ACNGT	1 cut(s)	646
BstAPI	GCANNNNNTGC	1 cut(s)	174
BstBI	TTCGAA	1 cut(s)	162
BstC8I	GCNNGC	3 cut(s)	91, 95, 230
BstDEI	CTNAG	2 cut(s)	184, 270
BstDSI	CCRYGG	1 cut(s)	658
BstF5I	GGATG	2 cut(s)	98, 154
BstHHI	GCGC	1 cut(s)	763
BstKTI	GATC	1 cut(s)	359
BstMAI	GTCTC	1 cut(s)	302
BstMBI	GATC	1 cut(s)	356
BstMCI	CGRYCG	1 cut(s)	683
BstMWI	GCNNNNNNNGC	4 cut(s)	174, 234, 285, 767
BstNI	CCWGG	2 cut(s)	60, 372
BstPAI	GACNNNNGTC	1 cut(s)	314
BstSCI	CCNGG	3 cut(s)	58, 370, 682
BstSFI	CTRYAG	1 cut(s)	534
BstV1I	GCAGC	1 cut(s)	548
BsuRI	GGCC	7 cut(s)	97, 115, 216, 232, 409, 549, 654
BtgI	CCRYGG	1 cut(s)	658
BtsCI	GGATG	2 cut(s)	98, 154
Cac8I	GCNNGC	3 cut(s)	91, 95, 230
CfoI	GCGC	1 cut(s)	763
Cfr13I	GGNCC	4 cut(s)	113, 316, 653, 686
Csp6I	GTAC	2 cut(s)	17, 609
CviAII	CATG	6 cut(s)	23, 466, 581, 629, 650, 659
CviQI	GTAC	2 cut(s)	17, 609
DdeI	CTNAG	2 cut(s)	184, 270
DpnI	GATC	1 cut(s)	358
DpnII	GATC	1 cut(s)	356
EaeI	YGGCCR	2 cut(s)	214, 230
Eco130I	CCWWGG	1 cut(s)	658
Eco147I	AGGCCT	1 cut(s)	409
Eco47I	GGWCC	2 cut(s)	316, 686
Eco57I	CTGAAG	1 cut(s)	749
EcoO109I	RGGNCCY	2 cut(s)	113, 686
EcoRII	CCWGG	2 cut(s)	58, 370
EcoT14I	CCWWGG	1 cut(s)	658
EcoT22I	ATGCAT	1 cut(s)	582
ErhI	CCWWGG	1 cut(s)	658
FaeI	CATG	6 cut(s)	26, 469, 584, 632, 653, 662
FaqI	GGGAC	1 cut(s)	302
FatI	CATG	6 cut(s)	22, 465, 580, 628, 649, 658
FauI	CCCGC	1 cut(s)	391
Fnu4HI	GCNGC	2 cut(s)	214, 537
FokI	GGATG	2 cut(s)	85, 161
Fsp4HI	GCNGC	2 cut(s)	214, 537
GlaI	GCGC	1 cut(s)	762
GluI	GCNGC	2 cut(s)	214, 537
GsuI	CTGGAG	3 cut(s)	42, 109, 393
HaeIII	GGCC	7 cut(s)	97, 115, 216, 232, 409, 549, 654
HapII	CCGG	1 cut(s)	683
HhaI	GCGC	1 cut(s)	763
Hin1II	CATG	6 cut(s)	26, 469, 584, 632, 653, 662
Hin6I	GCGC	1 cut(s)	761
HinP1I	GCGC	1 cut(s)	761
HinfI	GANTC	3 cut(s)	35, 83, 462
HpaII	CCGG	1 cut(s)	683
HphI	GGTGA	1 cut(s)	517
Hpy188I	TCNGA	1 cut(s)	576
Hpy188III	TCNNGA	4 cut(s)	272, 298, 590, 716
Hpy99I	CGWCG	1 cut(s)	299
HpyAV	CCTTC	3 cut(s)	126, 295, 538
HpyCH4III	ACNGT	1 cut(s)	646
HpyCH4IV	ACGT	1 cut(s)	451
HpyCH4V	TGCA	6 cut(s)	22, 168, 288, 500, 536, 580
HpyF10VI	GCNNNNNNNGC	4 cut(s)	174, 234, 285, 767
HpyF3I	CTNAG	2 cut(s)	184, 270
HpySE526I	ACGT	1 cut(s)	451
Hsp92II	CATG	6 cut(s)	26, 469, 584, 632, 653, 662
HspAI	GCGC	1 cut(s)	761
Kzo9I	GATC	1 cut(s)	356
LmnI	GCTCC	4 cut(s)	255, 424, 493, 601
Lsp1109I	GCAGC	1 cut(s)	548
LweI	GCATC	3 cut(s)	139, 567, 583
MaeII	ACGT	1 cut(s)	451
MaeIII	GTNAC	2 cut(s)	131, 202
MalI	GATC	1 cut(s)	358
MboI	GATC	1 cut(s)	356
MboII	GAAGA	1 cut(s)	742
MfeI	CAATTG	2 cut(s)	198, 495
MluCI	AATT	7 cut(s)	157, 198, 366, 495, 520, 568, 673
MnlI	CCTC	7 cut(s)	41, 66, 298, 432, 464, 473, 699
Mph1103I	ATGCAT	1 cut(s)	582
MseI	TTAA	3 cut(s)	44, 378, 566
MspA1I	CMGCKG	2 cut(s)	398, 707
MspI	CCGG	1 cut(s)	683
MspR9I	CCNGG	3 cut(s)	60, 372, 684
MunI	CAATTG	2 cut(s)	198, 495
Mva1269I	GAATGC	2 cut(s)	170, 281
MvaI	CCWGG	2 cut(s)	60, 372
MwoI	GCNNNNNNNGC	4 cut(s)	174, 234, 285, 767
NciI	CCSGG	1 cut(s)	684
NcoI	CCATGG	1 cut(s)	658
NdeII	GATC	1 cut(s)	356
NlaIII	CATG	6 cut(s)	26, 469, 584, 632, 653, 662
NlaIV	GGNNCC	4 cut(s)	251, 318, 655, 687
NsiI	ATGCAT	1 cut(s)	582
NspV	TTCGAA	1 cut(s)	162
PceI	AGGCCT	1 cut(s)	409
PcsI	WCGNNNNNNNCGW	1 cut(s)	697
PctI	GAATGC	2 cut(s)	170, 281
PfeI	GAWTC	3 cut(s)	35, 83, 462
PflFI	GACNNNGTC	1 cut(s)	684
PfoI	TCCNGGA	1 cut(s)	370
PkrI	GCNGC	2 cut(s)	215, 538
PpuMI	RGGWCCY	1 cut(s)	686
PshAI	GACNNNNGTC	1 cut(s)	314
Psp5II	RGGWCCY	1 cut(s)	686
Psp6I	CCWGG	2 cut(s)	58, 370
PspGI	CCWGG	2 cut(s)	58, 370
PspN4I	GGNNCC	4 cut(s)	251, 318, 655, 687
PspPI	GGNCC	4 cut(s)	113, 316, 653, 686
PspPPI	RGGWCCY	1 cut(s)	686
PstI	CTGCAG	1 cut(s)	538
PsyI	GACNNNGTC	1 cut(s)	684
PvuII	CAGCTG	1 cut(s)	707
RsaI	GTAC	2 cut(s)	18, 610
RsaNI	GTAC	2 cut(s)	17, 609
SaqAI	TTAA	3 cut(s)	44, 378, 566
SatI	GCNGC	2 cut(s)	214, 537
Sau3AI	GATC	1 cut(s)	356
Sau96I	GGNCC	4 cut(s)	113, 316, 653, 686
ScrFI	CCNGG	3 cut(s)	60, 372, 684
SfaNI	GCATC	3 cut(s)	139, 567, 583
SfcI	CTRYAG	1 cut(s)	534
SfuI	TTCGAA	1 cut(s)	162
SinI	GGWCC	2 cut(s)	316, 686
Sse9I	AATT	7 cut(s)	157, 198, 366, 495, 520, 568, 673
SseBI	AGGCCT	1 cut(s)	409
SsiI	CCGC	2 cut(s)	213, 398
SspI	AATATT	1 cut(s)	382
StuI	AGGCCT	1 cut(s)	409
StyD4I	CCNGG	3 cut(s)	58, 370, 682
StyI	CCWWGG	1 cut(s)	658
TaaI	ACNGT	1 cut(s)	646
TaiI	ACGT	1 cut(s)	454
TaqI	TCGA	2 cut(s)	38, 162
TasI	AATT	7 cut(s)	157, 198, 366, 495, 520, 568, 673
TatI	WGTACW	1 cut(s)	16
TauI	GCSGC	1 cut(s)	216
TfiI	GAWTC	3 cut(s)	35, 83, 462
Tru1I	TTAA	3 cut(s)	44, 378, 566
Tru9I	TTAA	3 cut(s)	44, 378, 566
TseI	GCWGC	1 cut(s)	536
TspDTI	ATGAA	4 cut(s)	454, 614, 626, 638
Tth111I	GACNNNGTC	1 cut(s)	684
VpaK11BI	GGWCC	2 cut(s)	316, 686
XapI	RAATTY	1 cut(s)	568
XcmI	CCANNNNNNNNNTGG	1 cut(s)	455
Zsp2I	ATGCAT	1 cut(s)	582

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