Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0012826

Physical Location & Seq

Genomic Coordinates Reverse (-)

59540612 .. 59542062

Gene Structure 1451 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG408600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 774 bp

ATGTTGCAATGGCTGGTGTATGATATATGTGATTCGAGTTTAAGAGGTTGTCCTCCAGGTATGGCAAGTGGTTTTGGGGATTCAGCGAGCAGGCCATCCCAATCACAAGGGCCTTCTTTCTCCAGCAGTAACGGGGATGCTGGTAATTTCGAATGCAATATCTGCTTTGACTTAGCCCAAGACCCAATCGTTACCCTATGCGGCCATCTTTTCTGCTGGCCGTGCCTTTACAAATGGCTCCACATTCACTCCCATTCTCAGGAATGCCCTGTTTGCAAAGCCGTCGTGAAGGAGGAGAGTTTGGTCCCCTTGTATGGTAGGGGAAAGACATCTACTGACCCAAGATCAAAGTCAATTCCTGGAGTTAACATTCCGAATCGTCCAGCGGGGCAAAGGCCTCAAACAGCTCCTCCACCAGAACAAAACCATTTCGCCCAACGTGGGTTTGGATTCATGGGAGGTTTGGGAGGGTTTGCTCCACCAATTGCAACCACAACAAGGTTTGGCAATTTCACCTTCTCTGCAGCTTTTGGTGGCCTTTTCCCGTCTTTGTTAAATTTTCAGATGCATGGATTTCCTGATGCTCCCGTGTATGGTGCAAGTGCTGGATTTCCGCATGGGTTTCATAATACATTTCATGGCCCCCATGGACATAGATACAATTTGCGACCGGGTCCTCGTGTGGGTCGTCCAGCTGTGGTTCAAGATTATTACCTGAAGATTTTGATTATGTTTGTTGTAGCTTGTGCTCTTATGGCTCTTTTGTGGCAATAG

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

257

Amino Acids

27.93

Weight (kDa)

8.55

Isoelectric Point (pI)

60.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	51 - 92	9.8e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	51 - 93	2.6e-08	Ring finger domain
zf-C3HC4_3	PF13920	51 - 97	1e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_5	PF14634	51 - 93	1.5e-07	zinc-RING finger domain
zf-C3HC4	PF00097	52 - 92	7.6e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	52 - 90	2.5e-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	3 cut(s)	201, 386, 614
AcoI	YGGCCR	2 cut(s)	202, 218
AcsI	RAATTY	1 cut(s)	556
AcuI	CTGAAG	1 cut(s)	737
AfiI	CCNNNNNNNGG	6 cut(s)	259, 314, 441, 498, 593, 683
AgsI	TTSAA	1 cut(s)	704
AjnI	CCWGG	2 cut(s)	55, 358
AluBI	AGCT	4 cut(s)	407, 527, 695, 743
AluI	AGCT	4 cut(s)	407, 527, 695, 743
Alw21I	GWGCWC	1 cut(s)	751
AoxI	GGCC	7 cut(s)	92, 110, 202, 218, 395, 535, 640
ApeKI	GCWGC	1 cut(s)	524
ApoI	RAATTY	1 cut(s)	556
AspS9I	GGNCC	4 cut(s)	110, 304, 641, 674
AsuC2I	CCSGG	1 cut(s)	672
AsuHPI	GGTGA	1 cut(s)	505
AsuII	TTCGAA	1 cut(s)	150
AvaII	GGWCC	2 cut(s)	304, 674
BauI	CACGAG	1 cut(s)	678
Bbv12I	GWGCWC	1 cut(s)	751
BbvI	GCAGC	1 cut(s)	536
BccI	CCATC	2 cut(s)	103, 213
BceAI	ACGGC	2 cut(s)	205, 266
BcgI	CGANNNNNNTGC	2 cut(s)	265, 299
BciT130I	CCWGG	2 cut(s)	57, 360
BcnI	CCSGG	1 cut(s)	672
BfmI	CTRYAG	1 cut(s)	522
BisI	GCNGC	2 cut(s)	202, 525
BlsI	GCNGC	2 cut(s)	203, 526
Bme1390I	CCNGG	3 cut(s)	57, 360, 672
Bme18I	GGWCC	2 cut(s)	304, 674
BmgT120I	GGNCC	4 cut(s)	110, 304, 641, 674
BmiI	GGNNCC	4 cut(s)	239, 306, 643, 675
BmrFI	CCNGG	3 cut(s)	57, 360, 672
BmsI	GCATC	3 cut(s)	127, 555, 571
BpmI	CTGGAG	3 cut(s)	39, 106, 381
Bpu14I	TTCGAA	1 cut(s)	150
BpuMI	CCSGG	1 cut(s)	672
BsaJI	CCNNGG	1 cut(s)	646
BsaXI	ACNNNNNCTCC	4 cut(s)	233, 263, 394, 424
Bsc4I	CCNNNNNNNGG	6 cut(s)	259, 314, 441, 498, 593, 683
Bse3DI	GCAATG	1 cut(s)	14
BseBI	CCWGG	2 cut(s)	57, 360
BseDI	CCNNGG	1 cut(s)	646
BseGI	GGATG	2 cut(s)	95, 142
BseLI	CCNNNNNNNGG	6 cut(s)	259, 314, 441, 498, 593, 683
BseMI	GCAATG	1 cut(s)	14
BseMII	CTCAG	1 cut(s)	272
BseRI	GAGGAG	2 cut(s)	308, 399
BseXI	GCAGC	1 cut(s)	536
Bsh1285I	CGRYCG	1 cut(s)	671
BshFI	GGCC	7 cut(s)	94, 112, 204, 220, 397, 537, 642
BsiEI	CGRYCG	1 cut(s)	671
BsiHKAI	GWGCWC	1 cut(s)	751
BsiSI	CCGG	1 cut(s)	671
BslFI	GGGAC	1 cut(s)	290
BslI	CCNNNNNNNGG	6 cut(s)	259, 314, 441, 498, 593, 683
BsmFI	GGGAC	1 cut(s)	290
BsmI	GAATGC	2 cut(s)	158, 269
BsnI	GGCC	7 cut(s)	94, 112, 204, 220, 397, 537, 642
Bsp119I	TTCGAA	1 cut(s)	150
Bsp1286I	GDGCHC	1 cut(s)	751
Bsp143I	GATC	1 cut(s)	344
Bsp19I	CCATGG	1 cut(s)	646
BspACI	CCGC	3 cut(s)	201, 386, 614
BspANI	GGCC	7 cut(s)	94, 112, 204, 220, 397, 537, 642
BspCNI	CTCAG	1 cut(s)	271
BspLI	GGNNCC	4 cut(s)	239, 306, 643, 675
BspMAI	CTGCAG	1 cut(s)	526
BspT104I	TTCGAA	1 cut(s)	150
BsrDI	GCAATG	1 cut(s)	14
BssECI	CCNNGG	1 cut(s)	646
BssMI	GATC	1 cut(s)	344
BssSI	CACGAG	1 cut(s)	678
BssT1I	CCWWGG	1 cut(s)	646
Bst2BI	CACGAG	1 cut(s)	678
Bst2UI	CCWGG	2 cut(s)	57, 360
BstAPI	GCANNNNNTGC	1 cut(s)	162
BstBI	TTCGAA	1 cut(s)	150
BstC8I	GCNNGC	3 cut(s)	88, 92, 218
BstDEI	CTNAG	2 cut(s)	172, 258
BstDSI	CCRYGG	1 cut(s)	646
BstF5I	GGATG	2 cut(s)	95, 142
BstKTI	GATC	1 cut(s)	347
BstMBI	GATC	1 cut(s)	344
BstMCI	CGRYCG	1 cut(s)	671
BstMWI	GCNNNNNNNGC	4 cut(s)	162, 222, 273, 755
BstNI	CCWGG	2 cut(s)	57, 360
BstSCI	CCNGG	3 cut(s)	55, 358, 670
BstSFI	CTRYAG	1 cut(s)	522
BstV1I	GCAGC	1 cut(s)	536
BsuRI	GGCC	7 cut(s)	94, 112, 204, 220, 397, 537, 642
BtgI	CCRYGG	1 cut(s)	646
BtsCI	GGATG	2 cut(s)	95, 142
Cac8I	GCNNGC	3 cut(s)	88, 92, 218
Cfr13I	GGNCC	4 cut(s)	110, 304, 641, 674
CviAII	CATG	5 cut(s)	454, 569, 617, 638, 647
DdeI	CTNAG	2 cut(s)	172, 258
DpnI	GATC	1 cut(s)	346
DpnII	GATC	1 cut(s)	344
EaeI	YGGCCR	2 cut(s)	202, 218
Eco130I	CCWWGG	1 cut(s)	646
Eco147I	AGGCCT	1 cut(s)	397
Eco47I	GGWCC	2 cut(s)	304, 674
Eco57I	CTGAAG	1 cut(s)	737
EcoO109I	RGGNCCY	2 cut(s)	110, 674
EcoRII	CCWGG	2 cut(s)	55, 358
EcoT14I	CCWWGG	1 cut(s)	646
EcoT22I	ATGCAT	1 cut(s)	570
ErhI	CCWWGG	1 cut(s)	646
FaeI	CATG	5 cut(s)	457, 572, 620, 641, 650
FaqI	GGGAC	1 cut(s)	290
FatI	CATG	5 cut(s)	453, 568, 616, 637, 646
FauI	CCCGC	1 cut(s)	379
Fnu4HI	GCNGC	2 cut(s)	202, 525
FokI	GGATG	2 cut(s)	82, 149
Fsp4HI	GCNGC	2 cut(s)	202, 525
GluI	GCNGC	2 cut(s)	202, 525
GsuI	CTGGAG	3 cut(s)	39, 106, 381
HaeIII	GGCC	7 cut(s)	94, 112, 204, 220, 397, 537, 642
HapII	CCGG	1 cut(s)	671
Hin1II	CATG	5 cut(s)	457, 572, 620, 641, 650
HincII	GTYRAC	1 cut(s)	367
HindII	GTYRAC	1 cut(s)	367
HinfI	GANTC	4 cut(s)	32, 80, 376, 450
HpaI	GTTAAC	1 cut(s)	367
HpaII	CCGG	1 cut(s)	671
HphI	GGTGA	1 cut(s)	505
Hpy166II	GTNNAC	1 cut(s)	367
Hpy188I	TCNGA	2 cut(s)	375, 564
Hpy188III	TCNNGA	4 cut(s)	260, 286, 578, 704
Hpy8I	GTNNAC	1 cut(s)	367
Hpy99I	CGWCG	1 cut(s)	287
HpyAV	CCTTC	3 cut(s)	123, 283, 526
HpyCH4IV	ACGT	1 cut(s)	439
HpyCH4V	TGCA	7 cut(s)	7, 156, 276, 488, 524, 568, 599
HpyF10VI	GCNNNNNNNGC	4 cut(s)	162, 222, 273, 755
HpyF3I	CTNAG	2 cut(s)	172, 258
HpySE526I	ACGT	1 cut(s)	439
Hsp92II	CATG	5 cut(s)	457, 572, 620, 641, 650
KspAI	GTTAAC	1 cut(s)	367
Kzo9I	GATC	1 cut(s)	344
LmnI	GCTCC	4 cut(s)	243, 412, 481, 589
Lsp1109I	GCAGC	1 cut(s)	536
LweI	GCATC	3 cut(s)	127, 555, 571
MaeII	ACGT	1 cut(s)	439
MaeIII	GTNAC	2 cut(s)	128, 190
MalI	GATC	1 cut(s)	346
MboI	GATC	1 cut(s)	344
MboII	GAAGA	1 cut(s)	730
MfeI	CAATTG	1 cut(s)	483
MhlI	GDGCHC	1 cut(s)	751
MluCI	AATT	6 cut(s)	145, 354, 483, 508, 556, 661
MnlI	CCTC	8 cut(s)	38, 63, 286, 408, 420, 452, 461, 687
Mph1103I	ATGCAT	1 cut(s)	570
MseI	TTAA	3 cut(s)	41, 366, 554
MspA1I	CMGCKG	2 cut(s)	386, 695
MspI	CCGG	1 cut(s)	671
MspR9I	CCNGG	3 cut(s)	57, 360, 672
MunI	CAATTG	1 cut(s)	483
Mva1269I	GAATGC	2 cut(s)	158, 269
MvaI	CCWGG	2 cut(s)	57, 360
MwoI	GCNNNNNNNGC	4 cut(s)	162, 222, 273, 755
NciI	CCSGG	1 cut(s)	672
NcoI	CCATGG	1 cut(s)	646
NdeII	GATC	1 cut(s)	344
NlaIII	CATG	5 cut(s)	457, 572, 620, 641, 650
NlaIV	GGNNCC	4 cut(s)	239, 306, 643, 675
NsiI	ATGCAT	1 cut(s)	570
NspV	TTCGAA	1 cut(s)	150
PceI	AGGCCT	1 cut(s)	397
PcsI	WCGNNNNNNNCGW	1 cut(s)	685
PctI	GAATGC	2 cut(s)	158, 269
PfeI	GAWTC	4 cut(s)	32, 80, 376, 450
PflFI	GACNNNGTC	1 cut(s)	672
PfoI	TCCNGGA	1 cut(s)	358
PkrI	GCNGC	2 cut(s)	203, 526
PpuMI	RGGWCCY	1 cut(s)	674
Psp5II	RGGWCCY	1 cut(s)	674
Psp6I	CCWGG	2 cut(s)	55, 358
PspGI	CCWGG	2 cut(s)	55, 358
PspN4I	GGNNCC	4 cut(s)	239, 306, 643, 675
PspPI	GGNCC	4 cut(s)	110, 304, 641, 674
PspPPI	RGGWCCY	1 cut(s)	674
PstI	CTGCAG	1 cut(s)	526
PsyI	GACNNNGTC	1 cut(s)	672
PvuII	CAGCTG	1 cut(s)	695
SaqAI	TTAA	3 cut(s)	41, 366, 554
SatI	GCNGC	2 cut(s)	202, 525
Sau3AI	GATC	1 cut(s)	344
Sau96I	GGNCC	4 cut(s)	110, 304, 641, 674
ScrFI	CCNGG	3 cut(s)	57, 360, 672
SduI	GDGCHC	1 cut(s)	751
SfaNI	GCATC	3 cut(s)	127, 555, 571
SfcI	CTRYAG	1 cut(s)	522
SfuI	TTCGAA	1 cut(s)	150
SinI	GGWCC	2 cut(s)	304, 674
Sse9I	AATT	6 cut(s)	145, 354, 483, 508, 556, 661
SseBI	AGGCCT	1 cut(s)	397
SsiI	CCGC	3 cut(s)	201, 386, 614
StuI	AGGCCT	1 cut(s)	397
StyD4I	CCNGG	3 cut(s)	55, 358, 670
StyI	CCWWGG	1 cut(s)	646
TaiI	ACGT	1 cut(s)	442
TaqI	TCGA	2 cut(s)	35, 150
TasI	AATT	6 cut(s)	145, 354, 483, 508, 556, 661
TauI	GCSGC	1 cut(s)	204
TfiI	GAWTC	4 cut(s)	32, 80, 376, 450
Tru1I	TTAA	3 cut(s)	41, 366, 554
Tru9I	TTAA	3 cut(s)	41, 366, 554
TseI	GCWGC	1 cut(s)	524
TspDTI	ATGAA	3 cut(s)	442, 614, 626
Tth111I	GACNNNGTC	1 cut(s)	672
VpaK11BI	GGWCC	2 cut(s)	304, 674
XapI	RAATTY	1 cut(s)	556
XcmI	CCANNNNNNNNNTGG	1 cut(s)	443
Zsp2I	ATGCAT	1 cut(s)	570

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