Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0006949

Physical Location & Seq

Genomic Coordinates Forward (+)

3209366 .. 3210548

Gene Structure 1183 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG018400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGGATCGGGATGAACTATATGATTCTGGTGGAGTCTTCATTGGTGTTCTTGCCATAATCATACTGATCATTGTAATTTCTTACTGCCATCGCAGGCAATCCCTGGTCGATCCGTCAGATCATGATGAGTCATCTGCAACAACTGAACAAGGCCTTGACGAAGCTACAATATGTGCATATCCAAAGCTGCTTTACTCAGAAGCCAAGCTGCACCTGATTGATTCAATTTCATGTACTTCTCCTTCTTGTTGCAGCATATGCTTGGCTGATTTTGAAGACAAGGATGTATTGAGATCTGTCCCTAATTGTGGCCATTTCTTTCACCAACTATGCGTGGACAAATGGTTGCTGCTTCACCCCACATGCCCAGTTTGCAGAAACTCACTTGTCGATCCATTGACTTCTGTTGGTTCTGTACCTGAGGTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0030163 GO:0032446 GO:0036211 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0051603 GO:0061630 GO:0061659 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

142

Amino Acids

15.64

Weight (kDa)

4.66

Isoelectric Point (pI)

53.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-rbx1	PF12678	82 - 126	3.6e-06	RING-H2 zinc finger domain
zf-RING_2	PF13639	83 - 126	5.3e-13	Ring finger domain
zf-RING_11	PF17123	84 - 112	8.8e-09	RING-like zinc finger
zf-C3HC4	PF00097	84 - 125	1.5e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	84 - 125	5.7e-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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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0006949)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g01050
malus_domestica	MD02G1311700.v1.1 MD07G1010800.v1.1
prunus_persica	Prupe.2G013300_v2.0.a1
pyrus_communis	pycom02g26170 pycom07g00900
rosa_chinensis	RchiOBHm_Chr1g0316001 RchiOBHm_Chr1g0316011
rosa_laevigata	RLG00000030709 RLG00000030712 RLG00000030717
rosa_multiflora	Rmu_co8345883.1_g000001 Rmu_sc0002014.1_g000042 Rmu_sc0005954.1_g000006 Rmu_sc0005954.1_g000016
rosa_roxburghii	Rroxscaffold_4G00331200
rosa_rugosa	Rorug01G0007700 Rorug01G0008200
rosa_samantha	Rh1AG018400 Rh1BG011600 Rh1BG012200 Rh1CG015600 Rh1CG015700 Rh1DG011800
rosa_wichuraiana	Rw1G001140 Rw1G001150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	12, 104, 386
AcoI	YGGCCR	1 cut(s)	310
AfaI	GTAC	2 cut(s)	235, 417
AfiI	CCNNNNNNNGG	1 cut(s)	308
AgsI	TTSAA	2 cut(s)	225, 275
AjnI	CCWGG	1 cut(s)	102
AluBI	AGCT	3 cut(s)	164, 187, 208
AluI	AGCT	3 cut(s)	164, 187, 208
AlwI	GGATC	3 cut(s)	12, 104, 386
AoxI	GGCC	2 cut(s)	151, 310
ApeKI	GCWGC	4 cut(s)	187, 208, 252, 349
AsuHPI	GGTGA	2 cut(s)	314, 347
AxyI	CCTNAGG	1 cut(s)	420
BalI	TGGCCA	1 cut(s)	312
BarI	GAAGNNNNNNTAC	2 cut(s)	226, 258
BbsI	GAAGAC	2 cut(s)	28, 282
BbvI	GCAGC	4 cut(s)	174, 195, 264, 336
BccI	CCATC	1 cut(s)	96
BciT130I	CCWGG	1 cut(s)	104
BclI	TGATCA	1 cut(s)	66
BfaI	CTAG	1 cut(s)	427
BglII	AGATCT	1 cut(s)	293
BisI	GCNGC	4 cut(s)	188, 209, 253, 350
BlsI	GCNGC	4 cut(s)	189, 210, 254, 351
Bme1390I	CCNGG	1 cut(s)	104
BmrFI	CCNGG	1 cut(s)	104
BmrI	ACTGGG	1 cut(s)	362
BmuI	ACTGGG	1 cut(s)	362
BpiI	GAAGAC	2 cut(s)	28, 282
BsaJI	CCNNGG	1 cut(s)	102
Bsc4I	CCNNNNNNNGG	1 cut(s)	308
Bse1I	ACTGG	1 cut(s)	368
Bse21I	CCTNAGG	1 cut(s)	420
BseBI	CCWGG	1 cut(s)	104
BseDI	CCNNGG	1 cut(s)	102
BseGI	GGATG	2 cut(s)	16, 289
BseLI	CCNNNNNNNGG	1 cut(s)	308
BseMII	CTCAG	2 cut(s)	210, 411
BseNI	ACTGG	1 cut(s)	368
BseXI	GCAGC	4 cut(s)	174, 195, 264, 336
BsgI	GTGCAG	1 cut(s)	194
BshFI	GGCC	2 cut(s)	153, 312
BslFI	GGGAC	1 cut(s)	284
BslI	CCNNNNNNNGG	1 cut(s)	308
BsmFI	GGGAC	1 cut(s)	284
BsnI	GGCC	2 cut(s)	153, 312
Bsp143I	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
BspANI	GGCC	2 cut(s)	153, 312
BspCNI	CTCAG	2 cut(s)	209, 412
BspHI	TCATGA	1 cut(s)	121
BspPI	GGATC	3 cut(s)	12, 104, 386
BsrI	ACTGG	1 cut(s)	368
BssECI	CCNNGG	1 cut(s)	102
BssMI	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
Bst2UI	CCWGG	1 cut(s)	104
BstAPI	GCANNNNNTGC	1 cut(s)	258
BstC8I	GCNNGC	1 cut(s)	95
BstDEI	CTNAG	2 cut(s)	196, 420
BstF5I	GGATG	2 cut(s)	16, 289
BstKTI	GATC	6 cut(s)	7, 69, 112, 121, 296, 394
BstMBI	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
BstMWI	GCNNNNNNNGC	2 cut(s)	258, 372
BstNI	CCWGG	1 cut(s)	104
BstNSI	RCATGY	1 cut(s)	366
BstSCI	CCNGG	1 cut(s)	102
BstV1I	GCAGC	4 cut(s)	174, 195, 264, 336
BstV2I	GAAGAC	2 cut(s)	28, 282
BstX2I	RGATCY	1 cut(s)	293
BstYI	RGATCY	1 cut(s)	293
Bsu36I	CCTNAGG	1 cut(s)	420
BsuRI	GGCC	2 cut(s)	153, 312
BtgZI	GCGATG	1 cut(s)	74
BtsCI	GGATG	2 cut(s)	16, 289
Cac8I	GCNNGC	1 cut(s)	95
CciI	TCATGA	1 cut(s)	121
Csp6I	GTAC	2 cut(s)	234, 416
CviAII	CATG	3 cut(s)	122, 231, 363
CviJI	RGCY	7 cut(s)	153, 164, 187, 203, 208, 266, 312
CviKI_1	RGCY	7 cut(s)	153, 164, 187, 203, 208, 266, 312
CviQI	GTAC	2 cut(s)	234, 416
DdeI	CTNAG	2 cut(s)	196, 420
DpnI	GATC	6 cut(s)	6, 68, 111, 120, 295, 393
DpnII	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
EaeI	YGGCCR	1 cut(s)	310
Eco147I	AGGCCT	1 cut(s)	153
Eco81I	CCTNAGG	1 cut(s)	420
EcoRII	CCWGG	1 cut(s)	102
FaeI	CATG	3 cut(s)	125, 234, 366
FaqI	GGGAC	1 cut(s)	284
FatI	CATG	3 cut(s)	121, 230, 362
FauNDI	CATATG	1 cut(s)	257
FbaI	TGATCA	1 cut(s)	66
Fnu4HI	GCNGC	4 cut(s)	188, 209, 253, 350
FokI	GGATG	2 cut(s)	23, 296
Fsp4HI	GCNGC	4 cut(s)	188, 209, 253, 350
FspBI	CTAG	1 cut(s)	427
GluI	GCNGC	4 cut(s)	188, 209, 253, 350
HaeIII	GGCC	2 cut(s)	153, 312
Hin1II	CATG	3 cut(s)	125, 234, 366
HinfI	GANTC	4 cut(s)	23, 33, 128, 221
HphI	GGTGA	2 cut(s)	314, 347
Hpy166II	GTNNAC	1 cut(s)	337
Hpy188I	TCNGA	2 cut(s)	118, 199
Hpy188III	TCNNGA	2 cut(s)	8, 122
Hpy8I	GTNNAC	1 cut(s)	337
HpyAV	CCTTC	1 cut(s)	252
HpyCH4V	TGCA	5 cut(s)	137, 176, 211, 252, 375
HpyF10VI	GCNNNNNNNGC	2 cut(s)	258, 372
HpyF3I	CTNAG	2 cut(s)	196, 420
Hsp92II	CATG	3 cut(s)	125, 234, 366
Ksp22I	TGATCA	1 cut(s)	66
Kzo9I	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
LpnPI	CCDG	6 cut(s)	12, 79, 89, 116, 227, 381
Lsp1109I	GCAGC	4 cut(s)	174, 195, 264, 336
MaeI	CTAG	1 cut(s)	427
MalI	GATC	6 cut(s)	6, 68, 111, 120, 295, 393
MboI	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
MboII	GAAGA	2 cut(s)	28, 287
MflI	RGATCY	1 cut(s)	293
MlsI	TGGCCA	1 cut(s)	312
MluCI	AATT	3 cut(s)	75, 225, 304
MluNI	TGGCCA	1 cut(s)	312
MlyI	GAGTC	2 cut(s)	42, 137
MnlI	CCTC	1 cut(s)	415
Mox20I	TGGCCA	1 cut(s)	312
MscI	TGGCCA	1 cut(s)	312
Msp20I	TGGCCA	1 cut(s)	312
MspR9I	CCNGG	1 cut(s)	104
MvaI	CCWGG	1 cut(s)	104
MwoI	GCNNNNNNNGC	2 cut(s)	258, 372
NdeI	CATATG	1 cut(s)	257
NdeII	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
NlaIII	CATG	3 cut(s)	125, 234, 366
NspI	RCATGY	1 cut(s)	366
PagI	TCATGA	1 cut(s)	121
PceI	AGGCCT	1 cut(s)	153
PfeI	GAWTC	2 cut(s)	23, 221
PkrI	GCNGC	4 cut(s)	189, 210, 254, 351
PleI	GAGTC	2 cut(s)	41, 136
PpsI	GAGTC	2 cut(s)	41, 136
Psp6I	CCWGG	1 cut(s)	102
PspGI	CCWGG	1 cut(s)	102
PsuI	RGATCY	1 cut(s)	293
RsaI	GTAC	2 cut(s)	235, 417
RsaNI	GTAC	2 cut(s)	234, 416
SatI	GCNGC	4 cut(s)	188, 209, 253, 350
Sau3AI	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
SchI	GAGTC	2 cut(s)	42, 137
ScrFI	CCNGG	1 cut(s)	104
SetI	ASST	6 cut(s)	166, 189, 210, 216, 421, 426
Sse9I	AATT	3 cut(s)	75, 225, 304
SseBI	AGGCCT	1 cut(s)	153
SspMI	CTAG	1 cut(s)	427
StuI	AGGCCT	1 cut(s)	153
StyD4I	CCNGG	1 cut(s)	102
TaqI	TCGA	2 cut(s)	108, 390
TasI	AATT	3 cut(s)	75, 225, 304
TatI	WGTACW	1 cut(s)	233
TfiI	GAWTC	2 cut(s)	23, 221
TseI	GCWGC	4 cut(s)	187, 208, 252, 349
TspDTI	ATGAA	3 cut(s)	27, 28, 219
TspGWI	ACGGA	1 cut(s)	102
XceI	RCATGY	1 cut(s)	366
XspI	CTAG	1 cut(s)	427

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