Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0012826

Physical Location & Seq

Genomic Coordinates Forward (+)

8756082 .. 8756804

Gene Structure 723 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000011342

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGGCAAGTGGTTTTGGGGATTCAGCGAGCAGGCCATCCCAATCACAAGGGCCTTCTTTCTCCAGCAGTAACAATAATAACGGGGATGCTGGTAATTTCGAATGCAATATCTGCTTTGACTTAGCCCAAGACCCAATTGTTACCCTATGCGGCCATCTTTTCTGCTGGCCGTGCCTTTACAAATGGCTCCACATTCACTCCCATTCTCAGGAATGCCCTGTTTGCAAAGCCGTCGTGAAGGAGGAGAGTTTGGTCCCTTTGTATGGTAGGGGAAAGACATCTACTGACCCAAGATCAAAGTCAATACCTGGAGTTAATATTCCGAATCGTCCAGCGGGGCAAAGGCCTGAAACAGCTCCTCCACCAGAACAAAACCATTTCGCCCAACGTGGGTTTGGATTCATGGGAGGTTTGGGAGGGTTTGCTCCACCAATTGCAACCACGACAAGGTTTGGCAATTTCACCTTCTCTGCAGCTTTTGGTGGCCTTTTCCCGTCTTTGTTAAATTTTCAGATGCATGGATTTCCTGATGCTCCCATATATGGTACAAGTGCTGGATTTCCGCATGGGTTTCATAATACATTTCATGGCCCCCATGGACATAGATACAATTTACGGCCAGGTCCTCGTGTTGGTCGTTCAGCTGTGGTTCAAGATTATTACCTGAAGATGTTGATTATGTTTGTTGTAGCTTGTGCTCTTATGGCTCTTTTGTGGCAATAG

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

241

Amino Acids

26.09

Weight (kDa)

8.66

Isoelectric Point (pI)

57.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	34 - 75	8.8e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	34 - 76	2.4e-08	Ring finger domain
zf-C3HC4_3	PF13920	34 - 80	9e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_5	PF14634	34 - 76	1.4e-07	zinc-RING finger domain
zf-C3HC4	PF00097	35 - 75	6.8e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	35 - 73	2.2e-07	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: 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)	150, 335, 563
AcoI	YGGCCR	3 cut(s)	151, 167, 617
AcsI	RAATTY	1 cut(s)	505
AcuI	CTGAAG	1 cut(s)	686
AfaI	GTAC	1 cut(s)	547
AfiI	CCNNNNNNNGG	6 cut(s)	208, 263, 390, 447, 542, 632
AgsI	TTSAA	1 cut(s)	653
AjnI	CCWGG	2 cut(s)	307, 619
AluBI	AGCT	4 cut(s)	356, 476, 644, 692
AluI	AGCT	4 cut(s)	356, 476, 644, 692
Alw21I	GWGCWC	1 cut(s)	700
AoxI	GGCC	8 cut(s)	32, 50, 151, 167, 344, 484, 589, 617
ApeKI	GCWGC	1 cut(s)	473
ApoI	RAATTY	1 cut(s)	505
AspS9I	GGNCC	4 cut(s)	50, 253, 590, 623
AsuHPI	GGTGA	1 cut(s)	454
AsuII	TTCGAA	1 cut(s)	99
AvaII	GGWCC	2 cut(s)	253, 623
BauI	CACGAG	1 cut(s)	627
Bbv12I	GWGCWC	1 cut(s)	700
BbvI	GCAGC	1 cut(s)	485
BccI	CCATC	2 cut(s)	43, 162
BceAI	ACGGC	3 cut(s)	154, 215, 632
BcgI	CGANNNNNNTGC	2 cut(s)	214, 248
BciT130I	CCWGG	2 cut(s)	309, 621
BfmI	CTRYAG	1 cut(s)	471
BisI	GCNGC	2 cut(s)	151, 474
BlsI	GCNGC	2 cut(s)	152, 475
Bme1390I	CCNGG	2 cut(s)	309, 621
Bme18I	GGWCC	2 cut(s)	253, 623
BmgT120I	GGNCC	4 cut(s)	50, 253, 590, 623
BmiI	GGNNCC	3 cut(s)	188, 255, 592
BmrFI	CCNGG	2 cut(s)	309, 621
BmsI	GCATC	3 cut(s)	76, 504, 520
BpmI	CTGGAG	2 cut(s)	46, 330
Bpu14I	TTCGAA	1 cut(s)	99
BsaJI	CCNNGG	1 cut(s)	595
BsaXI	ACNNNNNCTCC	4 cut(s)	182, 212, 343, 373
Bsc4I	CCNNNNNNNGG	6 cut(s)	208, 263, 390, 447, 542, 632
BseBI	CCWGG	2 cut(s)	309, 621
BseDI	CCNNGG	1 cut(s)	595
BseGI	GGATG	2 cut(s)	35, 91
BseLI	CCNNNNNNNGG	6 cut(s)	208, 263, 390, 447, 542, 632
BseMII	CTCAG	1 cut(s)	221
BseRI	GAGGAG	2 cut(s)	257, 348
BseXI	GCAGC	1 cut(s)	485
BshFI	GGCC	8 cut(s)	34, 52, 153, 169, 346, 486, 591, 619
BsiHKAI	GWGCWC	1 cut(s)	700
BslFI	GGGAC	1 cut(s)	239
BslI	CCNNNNNNNGG	6 cut(s)	208, 263, 390, 447, 542, 632
BsmFI	GGGAC	1 cut(s)	239
BsmI	GAATGC	2 cut(s)	107, 218
BsnI	GGCC	8 cut(s)	34, 52, 153, 169, 346, 486, 591, 619
Bsp119I	TTCGAA	1 cut(s)	99
Bsp1286I	GDGCHC	1 cut(s)	700
Bsp143I	GATC	1 cut(s)	293
Bsp19I	CCATGG	1 cut(s)	595
BspACI	CCGC	3 cut(s)	150, 335, 563
BspANI	GGCC	8 cut(s)	34, 52, 153, 169, 346, 486, 591, 619
BspCNI	CTCAG	1 cut(s)	220
BspLI	GGNNCC	3 cut(s)	188, 255, 592
BspMAI	CTGCAG	1 cut(s)	475
BspT104I	TTCGAA	1 cut(s)	99
BssECI	CCNNGG	1 cut(s)	595
BssMI	GATC	1 cut(s)	293
BssSI	CACGAG	1 cut(s)	627
BssT1I	CCWWGG	1 cut(s)	595
Bst2BI	CACGAG	1 cut(s)	627
Bst2UI	CCWGG	2 cut(s)	309, 621
BstAPI	GCANNNNNTGC	1 cut(s)	111
BstBI	TTCGAA	1 cut(s)	99
BstC8I	GCNNGC	3 cut(s)	28, 32, 167
BstDEI	CTNAG	2 cut(s)	121, 207
BstDSI	CCRYGG	1 cut(s)	595
BstF5I	GGATG	2 cut(s)	35, 91
BstKTI	GATC	1 cut(s)	296
BstMBI	GATC	1 cut(s)	293
BstMWI	GCNNNNNNNGC	4 cut(s)	111, 171, 222, 704
BstNI	CCWGG	2 cut(s)	309, 621
BstSCI	CCNGG	2 cut(s)	307, 619
BstSFI	CTRYAG	1 cut(s)	471
BstV1I	GCAGC	1 cut(s)	485
BsuRI	GGCC	8 cut(s)	34, 52, 153, 169, 346, 486, 591, 619
BtgI	CCRYGG	1 cut(s)	595
BtsCI	GGATG	2 cut(s)	35, 91
Cac8I	GCNNGC	3 cut(s)	28, 32, 167
Cfr13I	GGNCC	4 cut(s)	50, 253, 590, 623
Csp6I	GTAC	1 cut(s)	546
CviAII	CATG	5 cut(s)	403, 518, 566, 587, 596
CviQI	GTAC	1 cut(s)	546
DdeI	CTNAG	2 cut(s)	121, 207
DpnI	GATC	1 cut(s)	295
DpnII	GATC	1 cut(s)	293
EaeI	YGGCCR	3 cut(s)	151, 167, 617
Eco130I	CCWWGG	1 cut(s)	595
Eco147I	AGGCCT	1 cut(s)	346
Eco47I	GGWCC	2 cut(s)	253, 623
Eco57I	CTGAAG	1 cut(s)	686
EcoO109I	RGGNCCY	2 cut(s)	50, 623
EcoRII	CCWGG	2 cut(s)	307, 619
EcoT14I	CCWWGG	1 cut(s)	595
EcoT22I	ATGCAT	1 cut(s)	519
ErhI	CCWWGG	1 cut(s)	595
FaeI	CATG	5 cut(s)	406, 521, 569, 590, 599
FaqI	GGGAC	1 cut(s)	239
FatI	CATG	5 cut(s)	402, 517, 565, 586, 595
FauI	CCCGC	1 cut(s)	328
Fnu4HI	GCNGC	2 cut(s)	151, 474
FokI	GGATG	2 cut(s)	22, 98
Fsp4HI	GCNGC	2 cut(s)	151, 474
GluI	GCNGC	2 cut(s)	151, 474
GsuI	CTGGAG	2 cut(s)	46, 330
HaeIII	GGCC	8 cut(s)	34, 52, 153, 169, 346, 486, 591, 619
Hin1II	CATG	5 cut(s)	406, 521, 569, 590, 599
HinfI	GANTC	3 cut(s)	20, 325, 399
HphI	GGTGA	1 cut(s)	454
Hpy188I	TCNGA	2 cut(s)	324, 513
Hpy188III	TCNNGA	4 cut(s)	209, 235, 527, 653
Hpy99I	CGWCG	1 cut(s)	236
HpyAV	CCTTC	3 cut(s)	63, 232, 475
HpyCH4IV	ACGT	1 cut(s)	388
HpyCH4V	TGCA	5 cut(s)	105, 225, 437, 473, 517
HpyF10VI	GCNNNNNNNGC	4 cut(s)	111, 171, 222, 704
HpyF3I	CTNAG	2 cut(s)	121, 207
HpySE526I	ACGT	1 cut(s)	388
Hsp92II	CATG	5 cut(s)	406, 521, 569, 590, 599
Kzo9I	GATC	1 cut(s)	293
LmnI	GCTCC	4 cut(s)	192, 361, 430, 538
Lsp1109I	GCAGC	1 cut(s)	485
LweI	GCATC	3 cut(s)	76, 504, 520
MaeII	ACGT	1 cut(s)	388
MaeIII	GTNAC	2 cut(s)	68, 139
MalI	GATC	1 cut(s)	295
MboI	GATC	1 cut(s)	293
MboII	GAAGA	1 cut(s)	679
MfeI	CAATTG	2 cut(s)	135, 432
MhlI	GDGCHC	1 cut(s)	700
MluCI	AATT	6 cut(s)	94, 135, 432, 457, 505, 610
MnlI	CCTC	5 cut(s)	235, 369, 401, 410, 636
Mph1103I	ATGCAT	1 cut(s)	519
MseI	TTAA	2 cut(s)	315, 503
MspA1I	CMGCKG	2 cut(s)	335, 644
MspR9I	CCNGG	2 cut(s)	309, 621
MunI	CAATTG	2 cut(s)	135, 432
Mva1269I	GAATGC	2 cut(s)	107, 218
MvaI	CCWGG	2 cut(s)	309, 621
MwoI	GCNNNNNNNGC	4 cut(s)	111, 171, 222, 704
NcoI	CCATGG	1 cut(s)	595
NdeII	GATC	1 cut(s)	293
NlaIII	CATG	5 cut(s)	406, 521, 569, 590, 599
NlaIV	GGNNCC	3 cut(s)	188, 255, 592
NsiI	ATGCAT	1 cut(s)	519
NspV	TTCGAA	1 cut(s)	99
PceI	AGGCCT	1 cut(s)	346
PcsI	WCGNNNNNNNCGW	1 cut(s)	634
PctI	GAATGC	2 cut(s)	107, 218
PfeI	GAWTC	3 cut(s)	20, 325, 399
PkrI	GCNGC	2 cut(s)	152, 475
PpuMI	RGGWCCY	1 cut(s)	623
Psp5II	RGGWCCY	1 cut(s)	623
Psp6I	CCWGG	2 cut(s)	307, 619
PspGI	CCWGG	2 cut(s)	307, 619
PspN4I	GGNNCC	3 cut(s)	188, 255, 592
PspPI	GGNCC	4 cut(s)	50, 253, 590, 623
PspPPI	RGGWCCY	1 cut(s)	623
PstI	CTGCAG	1 cut(s)	475
PvuII	CAGCTG	1 cut(s)	644
RsaI	GTAC	1 cut(s)	547
RsaNI	GTAC	1 cut(s)	546
SaqAI	TTAA	2 cut(s)	315, 503
SatI	GCNGC	2 cut(s)	151, 474
Sau3AI	GATC	1 cut(s)	293
Sau96I	GGNCC	4 cut(s)	50, 253, 590, 623
ScrFI	CCNGG	2 cut(s)	309, 621
SduI	GDGCHC	1 cut(s)	700
SfaNI	GCATC	3 cut(s)	76, 504, 520
SfcI	CTRYAG	1 cut(s)	471
SfuI	TTCGAA	1 cut(s)	99
SinI	GGWCC	2 cut(s)	253, 623
Sse9I	AATT	6 cut(s)	94, 135, 432, 457, 505, 610
SseBI	AGGCCT	1 cut(s)	346
SsiI	CCGC	3 cut(s)	150, 335, 563
SspI	AATATT	1 cut(s)	319
StuI	AGGCCT	1 cut(s)	346
StyD4I	CCNGG	2 cut(s)	307, 619
StyI	CCWWGG	1 cut(s)	595
TaiI	ACGT	1 cut(s)	391
TaqI	TCGA	1 cut(s)	99
TasI	AATT	6 cut(s)	94, 135, 432, 457, 505, 610
TauI	GCSGC	1 cut(s)	153
TfiI	GAWTC	3 cut(s)	20, 325, 399
Tru1I	TTAA	2 cut(s)	315, 503
Tru9I	TTAA	2 cut(s)	315, 503
TseI	GCWGC	1 cut(s)	473
TspDTI	ATGAA	3 cut(s)	391, 563, 575
VpaK11BI	GGWCC	2 cut(s)	253, 623
XapI	RAATTY	1 cut(s)	505
XcmI	CCANNNNNNNNNTGG	1 cut(s)	392
Zsp2I	ATGCAT	1 cut(s)	519

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