Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0006949

Physical Location & Seq

Genomic Coordinates Forward (+)

1395041 .. 1395930

Gene Structure 890 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG011600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGGATCATGATGAACTATATGATGCTGGTGGAGTCTTCATTGGTGTTCTTGCCATAATCATACTGATCATTGTAATTTCTTACTGCCATCGCCGGCAATCCCTGGTCGATCCGTCAGATCATGATGAGTCATCTGCAACAATTGAACAAGGTCTTGATGAAGCTACAATATGTGCATATCCGAAGCTGCCTTACTCAGAAGCCAAGCTGCACATGTTTGATTCAATTTCATGTACTCCTCCTTCTTGTTGCAGCATATGCTTGGCTGATTTTGAAGACAATGATGTATTGAGATCTGTCCCTAATTGTGGCCATTTCTTTCACCAAGTGTGCGTGGACAAATGGTTGCTGCTTCACCCCACATGCCCAGTTTGCAGGAACTCACTTGTTGATCCATTGACTTCTGTTGGTTCTGTAGCAGAGGTCTAG

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

15.61

Weight (kDa)

4.56

Isoelectric Point (pI)

52.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	83 - 126	2.4e-13	Ring finger domain
zf-rbx1	PF12678	83 - 126	3.1e-06	RING-H2 zinc finger domain
zf-RING_11	PF17123	84 - 112	5.9e-09	RING-like zinc finger
zf-C3HC4	PF00097	84 - 125	8.4e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	84 - 125	2.7e-06	Zinc finger, C3HC4 type (RING 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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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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	12, 104, 386
AcoI	YGGCCR	1 cut(s)	310
AdeI	CACNNNGTG	1 cut(s)	328
AfaI	GTAC	1 cut(s)	235
AfiI	CCNNNNNNNGG	1 cut(s)	308
AflIII	ACRYGT	1 cut(s)	213
AgsI	TTSAA	3 cut(s)	146, 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	1 cut(s)	310
ApeKI	GCWGC	4 cut(s)	187, 208, 252, 349
AsuHPI	GGTGA	2 cut(s)	314, 347
BalI	TGGCCA	1 cut(s)	312
BarI	GAAGNNNNNNTAC	4 cut(s)	176, 208, 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
BfmI	CTRYAG	1 cut(s)	414
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
BmsI	GCATC	1 cut(s)	13
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
Bse118I	RCCGGY	1 cut(s)	93
Bse1I	ACTGG	1 cut(s)	368
BseBI	CCWGG	1 cut(s)	104
BseDI	CCNNGG	1 cut(s)	102
BseLI	CCNNNNNNNGG	1 cut(s)	308
BseMII	CTCAG	1 cut(s)	210
BseNI	ACTGG	1 cut(s)	368
BseRI	GAGGAG	1 cut(s)	228
BseXI	GCAGC	4 cut(s)	174, 195, 264, 336
BsgI	GTGCAG	1 cut(s)	194
BshFI	GGCC	1 cut(s)	312
BsiSI	CCGG	1 cut(s)	94
BslFI	GGGAC	1 cut(s)	284
BslI	CCNNNNNNNGG	1 cut(s)	308
BsmFI	GGGAC	1 cut(s)	284
BsnI	GGCC	1 cut(s)	312
Bsp143I	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
BspANI	GGCC	1 cut(s)	312
BspCNI	CTCAG	1 cut(s)	209
BspHI	TCATGA	2 cut(s)	7, 121
BspPI	GGATC	3 cut(s)	12, 104, 386
BsrFI	RCCGGY	1 cut(s)	93
BsrI	ACTGG	1 cut(s)	368
BssAI	RCCGGY	1 cut(s)	93
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	1 cut(s)	196
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	2 cut(s)	217, 366
BstSCI	CCNGG	1 cut(s)	102
BstSFI	CTRYAG	1 cut(s)	414
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
BsuRI	GGCC	1 cut(s)	312
BtgZI	GCGATG	1 cut(s)	74
Cac8I	GCNNGC	1 cut(s)	95
CciI	TCATGA	2 cut(s)	7, 121
Cfr10I	RCCGGY	1 cut(s)	93
Csp6I	GTAC	1 cut(s)	234
CviAII	CATG	5 cut(s)	8, 122, 214, 231, 363
CviJI	RGCY	6 cut(s)	164, 187, 203, 208, 266, 312
CviKI_1	RGCY	6 cut(s)	164, 187, 203, 208, 266, 312
CviQI	GTAC	1 cut(s)	234
DdeI	CTNAG	1 cut(s)	196
DpnI	GATC	6 cut(s)	6, 68, 111, 120, 295, 393
DpnII	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
DraIII	CACNNNGTG	1 cut(s)	328
EaeI	YGGCCR	1 cut(s)	310
EcoRII	CCWGG	1 cut(s)	102
FaeI	CATG	5 cut(s)	11, 125, 217, 234, 366
FaqI	GGGAC	1 cut(s)	284
FatI	CATG	5 cut(s)	7, 121, 213, 230, 362
FauNDI	CATATG	1 cut(s)	257
FbaI	TGATCA	1 cut(s)	66
Fnu4HI	GCNGC	4 cut(s)	188, 209, 253, 350
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	1 cut(s)	312
HapII	CCGG	1 cut(s)	94
Hin1II	CATG	5 cut(s)	11, 125, 217, 234, 366
HinfI	GANTC	3 cut(s)	33, 128, 221
HpaII	CCGG	1 cut(s)	94
HphI	GGTGA	2 cut(s)	314, 347
Hpy166II	GTNNAC	1 cut(s)	337
Hpy188I	TCNGA	3 cut(s)	118, 183, 199
Hpy188III	TCNNGA	3 cut(s)	8, 122, 155
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	1 cut(s)	196
Hsp92II	CATG	5 cut(s)	11, 125, 217, 234, 366
KroI	GCCGGC	1 cut(s)	93
KroNI	GCCGGC	1 cut(s)	95
Ksp22I	TGATCA	1 cut(s)	66
Kzo9I	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
LpnPI	CCDG	6 cut(s)	12, 89, 107, 116, 361, 381
Lsp1109I	GCAGC	4 cut(s)	174, 195, 264, 336
LweI	GCATC	1 cut(s)	13
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
MfeI	CAATTG	1 cut(s)	141
MflI	RGATCY	1 cut(s)	293
MlsI	TGGCCA	1 cut(s)	312
MluCI	AATT	4 cut(s)	75, 141, 225, 304
MluNI	TGGCCA	1 cut(s)	312
MlyI	GAGTC	2 cut(s)	42, 137
MnlI	CCTC	2 cut(s)	249, 415
Mox20I	TGGCCA	1 cut(s)	312
MroNI	GCCGGC	1 cut(s)	93
MscI	TGGCCA	1 cut(s)	312
Msp20I	TGGCCA	1 cut(s)	312
MspI	CCGG	1 cut(s)	94
MspR9I	CCNGG	1 cut(s)	104
MunI	CAATTG	1 cut(s)	141
MvaI	CCWGG	1 cut(s)	104
MwoI	GCNNNNNNNGC	2 cut(s)	258, 372
NaeI	GCCGGC	1 cut(s)	95
NdeI	CATATG	1 cut(s)	257
NdeII	GATC	6 cut(s)	4, 66, 109, 118, 293, 391
NgoMIV	GCCGGC	1 cut(s)	93
NlaIII	CATG	5 cut(s)	11, 125, 217, 234, 366
NspI	RCATGY	2 cut(s)	217, 366
PagI	TCATGA	2 cut(s)	7, 121
PciI	ACATGT	1 cut(s)	213
PdiI	GCCGGC	1 cut(s)	95
PfeI	GAWTC	1 cut(s)	221
PkrI	GCNGC	4 cut(s)	189, 210, 254, 351
PleI	GAGTC	2 cut(s)	41, 136
PpsI	GAGTC	2 cut(s)	41, 136
PscI	ACATGT	1 cut(s)	213
Psp6I	CCWGG	1 cut(s)	102
PspGI	CCWGG	1 cut(s)	102
PsuI	RGATCY	1 cut(s)	293
RsaI	GTAC	1 cut(s)	235
RsaNI	GTAC	1 cut(s)	234
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	5 cut(s)	154, 166, 189, 210, 426
SfaNI	GCATC	1 cut(s)	13
SfcI	CTRYAG	1 cut(s)	414
Sse9I	AATT	4 cut(s)	75, 141, 225, 304
SspMI	CTAG	1 cut(s)	427
StyD4I	CCNGG	1 cut(s)	102
TaqI	TCGA	1 cut(s)	108
TasI	AATT	4 cut(s)	75, 141, 225, 304
TatI	WGTACW	1 cut(s)	233
TfiI	GAWTC	1 cut(s)	221
TseI	GCWGC	4 cut(s)	187, 208, 252, 349
TspDTI	ATGAA	4 cut(s)	27, 28, 174, 219
TspGWI	ACGGA	1 cut(s)	102
XceI	RCATGY	2 cut(s)	217, 366
XspI	CTAG	1 cut(s)	427

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