Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0002901

Physical Location & Seq

Genomic Coordinates Forward (+)

10379965 .. 10382405

Gene Structure 2441 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG120700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 486 bp

ATGAATTTACTGCTTAGCAAACCTATTTTGACTATTCAAAAAACAGGTGTAATATTTCCCTCATTAGTGCAACTTCAAAGGGGAATGACTGATGTAGAAGAGCGGAAACAGAAAGAAATCTGTTCCAAGTACAAGAGAAAAGATGAGACGGACAAAGGAAAGCTCTCCGAAATTGAGTTGGAGCGAGAAGAAGAATGTGGTATTTGTATGGAGATGAACAGCAAGGTCGTATTGCCCAATTGCAGTCACTCTTTGTGTATAAAGTGCTATCGGAACTGGCGGACACGCTCTCAGTCCTGCCCCTTCTGCCGAGACAGCCTCAAAAGAGTTGACTCATGTGAACTTTGGATCTACACTGGCAACAATGAGATTGTTGACATGTCTGCAATCTCTAGGGAGAATTTGAAGAGACTATGTATCTACATTGATAAGCTGCCTCTTCTTGTTCCAAAGCATGGGGTTGTTTCTTATGACCTTTATCGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009787 GO:0009789 GO:0009966 GO:0009967 GO:0009987 GO:0010033 GO:0010646 GO:0010647 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0023051 GO:0023056 GO:0030163 GO:0032446 GO:0033993 GO:0036211 GO:0042221 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0048518 GO:0048522 GO:0048583 GO:0048584 GO:0050789 GO:0050794 GO:0050896 GO:0051603 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0097305 GO:0140096 GO:1901419 GO:1901421 GO:1901564 GO:1901565 GO:1901575 GO:1901700 GO:1905957 GO:1905959

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

161

Amino Acids

18.8

Weight (kDa)

8.66

Isoelectric Point (pI)

53.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	63 - 109	3.4e-10	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	65 - 104	2.8e-08	Ring finger domain
zf-RING_5	PF14634	65 - 104	2.3e-06	zinc-RING finger domain
zf-C3HC4_2	PF13923	65 - 103	2.8e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	66 - 103	1e-06	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002901)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01520 AT5G01520
fragaria_vesca	FvH4_3g04920 FvH4_6g11510 FvH4_6g11510
malus_domestica	MD04G1151400.v1.1 MD05G1314700.v1.1 MD10G1296100.v1.1 MD12G1165500.v1.1
prunus_persica	Prupe.4G044500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1
pyrus_communis	pycom04g13730 pycom05g29250 pycom10g24860 pycom12g15810
rosa_chinensis	RchiOBHm_Chr3g0463221 RchiOBHm_Chr5g0008081
rosa_laevigata	RLG00000024801 RLG00000031534
rosa_multiflora	Rmu_sc0001626.1_g000003 Rmu_sc0004643.1_g000001 Rmu_sc0017465.1_g000004
rosa_roxburghii	Rroxscaffold_1G00068400 Rroxscaffold_6G00416790
rosa_rugosa	Rorug03G0062500 Rorug03G0062500 Rorug04G0433300
rosa_samantha	Rh3AG120700 Rh3BG125100 Rh3CG127200 Rh3DG126300 Rh5BG058100 Rh5CG068200 Rh5DG057300
rosa_wichuraiana	Rw3G010250 Rw5G005930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	455
AccBSI	CCGCTC	1 cut(s)	103
AciI	CCGC	2 cut(s)	103, 280
AclWI	GGATC	1 cut(s)	356
AcsI	RAATTY	2 cut(s)	4, 400
AfaI	GTAC	1 cut(s)	131
AfiI	CCNNNNNNNGG	1 cut(s)	455
AflIII	ACRYGT	1 cut(s)	378
AgsI	TTSAA	3 cut(s)	38, 77, 406
AluBI	AGCT	2 cut(s)	163, 433
AluI	AGCT	2 cut(s)	163, 433
Alw26I	GTCTC	3 cut(s)	140, 306, 403
AlwI	GGATC	1 cut(s)	356
ApeKI	GCWGC	1 cut(s)	433
ApoI	RAATTY	2 cut(s)	4, 400
BbvI	GCAGC	1 cut(s)	420
BcoDI	GTCTC	3 cut(s)	140, 306, 403
BfaI	CTAG	1 cut(s)	393
BisI	GCNGC	1 cut(s)	434
BlpI	GCTNAGC	1 cut(s)	14
BlsI	GCNGC	1 cut(s)	435
BplI	GAGNNNNNCTC	2 cut(s)	303, 335
Bpu1102I	GCTNAGC	1 cut(s)	14
Bsa29I	ATCGAT	1 cut(s)	481
Bsc4I	CCNNNNNNNGG	1 cut(s)	455
Bse1I	ACTGG	2 cut(s)	281, 361
BseCI	ATCGAT	1 cut(s)	481
BseLI	CCNNNNNNNGG	1 cut(s)	455
BseMII	CTCAG	1 cut(s)	305
BseNI	ACTGG	2 cut(s)	281, 361
BseXI	GCAGC	1 cut(s)	420
BshVI	ATCGAT	1 cut(s)	481
BslI	CCNNNNNNNGG	1 cut(s)	455
BsmAI	GTCTC	3 cut(s)	140, 306, 403
BsmBI	CGTCTC	1 cut(s)	140
Bsp143I	GATC	1 cut(s)	348
Bsp1720I	GCTNAGC	1 cut(s)	14
BspACI	CCGC	2 cut(s)	103, 280
BspCNI	CTCAG	1 cut(s)	304
BspDI	ATCGAT	1 cut(s)	481
BspPI	GGATC	1 cut(s)	356
BspQI	GCTCTTC	1 cut(s)	93
BsrBI	CCGCTC	1 cut(s)	103
BsrI	ACTGG	2 cut(s)	281, 361
BssMI	GATC	1 cut(s)	348
Bst6I	CTCTTC	3 cut(s)	93, 401, 444
BstDEI	CTNAG	2 cut(s)	14, 291
BstKTI	GATC	1 cut(s)	351
BstMAI	GTCTC	3 cut(s)	140, 306, 403
BstMBI	GATC	1 cut(s)	348
BstMWI	GCNNNNNNNGC	2 cut(s)	306, 315
BstNSI	RCATGY	1 cut(s)	382
BstV1I	GCAGC	1 cut(s)	420
BstX2I	RGATCY	1 cut(s)	348
BstYI	RGATCY	1 cut(s)	348
Bsu15I	ATCGAT	1 cut(s)	481
BsuTUI	ATCGAT	1 cut(s)	481
BtsIMutI	CAGTG	1 cut(s)	354
ClaI	ATCGAT	1 cut(s)	481
Csp6I	GTAC	1 cut(s)	130
CviAII	CATG	3 cut(s)	336, 379, 455
CviJI	RGCY	3 cut(s)	163, 318, 433
CviKI_1	RGCY	3 cut(s)	163, 318, 433
CviQI	GTAC	1 cut(s)	130
DdeI	CTNAG	2 cut(s)	14, 291
DpnI	GATC	1 cut(s)	350
DpnII	GATC	1 cut(s)	348
Eam1104I	CTCTTC	3 cut(s)	93, 401, 444
EarI	CTCTTC	3 cut(s)	93, 401, 444
EciI	GGCGGA	1 cut(s)	295
Esp3I	CGTCTC	1 cut(s)	140
FaeI	CATG	3 cut(s)	339, 382, 458
FaiI	YATR	7 cut(s)	209, 260, 337, 380, 415, 456, 471
FatI	CATG	3 cut(s)	335, 378, 454
Fnu4HI	GCNGC	1 cut(s)	434
Fsp4HI	GCNGC	1 cut(s)	434
FspBI	CTAG	1 cut(s)	393
GluI	GCNGC	1 cut(s)	434
Hin1II	CATG	3 cut(s)	339, 382, 458
HincII	GTYRAC	2 cut(s)	331, 376
HindII	GTYRAC	2 cut(s)	331, 376
HinfI	GANTC	1 cut(s)	332
Hpy166II	GTNNAC	3 cut(s)	331, 341, 376
Hpy188I	TCNGA	2 cut(s)	169, 273
Hpy8I	GTNNAC	3 cut(s)	331, 341, 376
HpyAV	CCTTC	1 cut(s)	313
HpyCH4V	TGCA	3 cut(s)	70, 243, 386
HpyF10VI	GCNNNNNNNGC	2 cut(s)	306, 315
HpyF3I	CTNAG	2 cut(s)	14, 291
Hsp92II	CATG	3 cut(s)	339, 382, 458
Kzo9I	GATC	1 cut(s)	348
LguI	GCTCTTC	1 cut(s)	93
LmnI	GCTCC	1 cut(s)	181
LpnPI	CCDG	4 cut(s)	30, 262, 310, 342
Lsp1109I	GCAGC	1 cut(s)	420
MaeI	CTAG	1 cut(s)	393
MaeIII	GTNAC	1 cut(s)	245
MalI	GATC	1 cut(s)	350
MbiI	CCGCTC	1 cut(s)	103
MboI	GATC	1 cut(s)	348
MboII	GAAGA	5 cut(s)	110, 200, 203, 418, 431
MfeI	CAATTG	1 cut(s)	238
MflI	RGATCY	1 cut(s)	348
MluCI	AATT	4 cut(s)	4, 171, 238, 400
MlyI	GAGTC	1 cut(s)	326
MmeI	TCCRAC	1 cut(s)	159
MnlI	CCTC	3 cut(s)	70, 329, 447
MunI	CAATTG	1 cut(s)	238
MwoI	GCNNNNNNNGC	2 cut(s)	306, 315
NdeII	GATC	1 cut(s)	348
NlaIII	CATG	3 cut(s)	339, 382, 458
NmeAIII	GCCGAG	1 cut(s)	335
NmuCI	GTSAC	1 cut(s)	245
NspI	RCATGY	1 cut(s)	382
PciI	ACATGT	1 cut(s)	378
PciSI	GCTCTTC	1 cut(s)	93
PflMI	CCANNNNNTGG	1 cut(s)	455
PkrI	GCNGC	1 cut(s)	435
PleI	GAGTC	1 cut(s)	326
PpsI	GAGTC	1 cut(s)	326
PscI	ACATGT	1 cut(s)	378
PsuI	RGATCY	1 cut(s)	348
RsaI	GTAC	1 cut(s)	131
RsaNI	GTAC	1 cut(s)	130
SapI	GCTCTTC	1 cut(s)	93
SatI	GCNGC	1 cut(s)	434
Sau3AI	GATC	1 cut(s)	348
SchI	GAGTC	1 cut(s)	326
SetI	ASST	6 cut(s)	25, 49, 165, 228, 435, 477
Sse9I	AATT	4 cut(s)	4, 171, 238, 400
SsiI	CCGC	2 cut(s)	103, 280
SspI	AATATT	1 cut(s)	54
SspMI	CTAG	1 cut(s)	393
TaqI	TCGA	1 cut(s)	481
TasI	AATT	4 cut(s)	4, 171, 238, 400
TatI	WGTACW	1 cut(s)	129
TscAI	CASTG	1 cut(s)	361
TseFI	GTSAC	1 cut(s)	245
TseI	GCWGC	1 cut(s)	433
Tsp45I	GTSAC	1 cut(s)	245
TspDTI	ATGAA	2 cut(s)	17, 230
TspGWI	ACGGA	1 cut(s)	164
TspRI	CASTG	1 cut(s)	361
Van91I	CCANNNNNTGG	1 cut(s)	455
XapI	RAATTY	2 cut(s)	4, 400
XceI	RCATGY	1 cut(s)	382
XspI	CTAG	1 cut(s)	393

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