Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0003563

Physical Location & Seq

Genomic Coordinates Reverse (-)

8420963 .. 8423405

Gene Structure 2443 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG105500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 603 bp

ATGCATCGCCGATTCCTCGGCAACACCACAGAGCTGCCCTACAACAATGGCAACCGTACAGCCGATTCCTACATAAGCGAGATGAATTTCGACACAAACATGGTCATCATCTTGGCGGCTCTCTTGTGTGCCCTTATATGCGCTCTTGGCTTGAACTCAATAGTGCGTTGCGCGCTTCGCTGCAGCCACAGGTTTACTCTTGAGACCCCGGAGCAGGCTGCAGCGCGTCTCGCGGCCACGGGGCTCAAGAAGAGTCATTTGAGGCAGATTCCGGTTGCGGTTTACGGTGAAGGGATTCATATTCCGGCGACCGAGTGTCCGATCTGTCTCGGAGAGTTTGAGGACGGCGAGAAGGTTAGGGTGCTGCCAAAATGTAACCACGGATTCCATGTGAGGTGCATAGACACTTGGCTTGTGTCACACTCATCATGCCCGAATTGTCGGCATTCACTGCTCGAGCAACAACAACCATCGAAGAAAACTAGAACTACTAGTCGTAGTACTACCAGTACTAGTTCTGAAGCGACAGAGAATTCACCACCAACAGCCAGTGAGTCCGACCAGGAAGGCAGAGTAGTTCTGGTGATTGATGAAGCAAGGTAA

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

200

Amino Acids

22.05

Weight (kDa)

7.06

Isoelectric Point (pI)

48.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	105 - 148	1.3e-15	Ring finger domain
zf-RING_11	PF17123	105 - 134	1.4e-12	RING-like zinc finger
zf-C3HC4_2	PF13923	105 - 147	6.1e-10	Zinc finger, C3HC4 type (RING finger)
zf-rbx1	PF12678	105 - 148	2.6e-07	RING-H2 zinc finger domain
zf-C3HC4	PF00097	106 - 147	8.4e-07	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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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003563)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10910 AT5G01880
fragaria_vesca	FvH4_6g09940 FvH4_7g25880 FvH4_7g25880
malus_domestica	MD01G1167200.v1.1 MD04G1174300.v1.1 MD07G1233300.v1.1 MD12G1187900.v1.1
prunus_persica	Prupe.2G263800_v2.0.a1 Prupe.6G293100_v2.0.a1
pyrus_communis	pycom01g18030 pycom04g15370
rosa_chinensis	RchiOBHm_Chr1g0372171 RchiOBHm_Chr3g0460531
rosa_laevigata	RLG00000024996 RLG00000026917
rosa_multiflora	Rmu_co8033776.1_g000001 Rmu_sc0001755.1_g000021 Rmu_sc0004267.1_g000002 Rmu_sc0006046.1_g000005
rosa_roxburghii	Rroxscaffold_4G00285170 Rroxscaffold_6G00419400
rosa_rugosa	Rorug01G0370100 Rorug03G0043300
rosa_samantha	Rh1AG378600 Rh1BG341900 Rh1CG355500 Rh1DG373000 Rh3AG101500 Rh3BG105500 Rh3CG107300 Rh3DG106900
rosa_wichuraiana	Rw1G033310 Rw3G008640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	3 cut(s)	173, 226, 233
AciI	CCGC	3 cut(s)	116, 233, 278
AcoI	YGGCCR	1 cut(s)	234
AcsI	RAATTY	2 cut(s)	85, 532
AcuI	CTGAAG	1 cut(s)	540
AfaI	GTAC	3 cut(s)	58, 502, 511
AfiI	CCNNNNNNNGG	1 cut(s)	214
AgsI	TTSAA	1 cut(s)	154
AhdI	GACNNNNNGTC	1 cut(s)	315
AhlI	ACTAGT	2 cut(s)	491, 512
AjnI	CCWGG	1 cut(s)	561
AluBI	AGCT	1 cut(s)	34
AluI	AGCT	1 cut(s)	34
Alw26I	GTCTC	3 cut(s)	197, 233, 332
Ama87I	CYCGRG	1 cut(s)	455
AoxI	GGCC	1 cut(s)	234
ApeKI	GCWGC	6 cut(s)	34, 180, 183, 218, 221, 364
ApoI	RAATTY	2 cut(s)	85, 532
Asp700I	GAANNNNTTC	1 cut(s)	294
AspLEI	GCGC	4 cut(s)	143, 173, 175, 226
AsuC2I	CCSGG	1 cut(s)	209
AsuHPI	GGTGA	3 cut(s)	299, 528, 595
AvaI	CYCGRG	1 cut(s)	455
BaeGI	GKGCMC	1 cut(s)	133
BanII	GRGCYC	1 cut(s)	246
BbvI	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
BccI	CCATC	1 cut(s)	478
BceAI	ACGGC	1 cut(s)	361
BciT130I	CCWGG	1 cut(s)	563
BcnI	CCSGG	1 cut(s)	209
BcoDI	GTCTC	3 cut(s)	197, 233, 332
BcuI	ACTAGT	2 cut(s)	491, 512
BfaI	CTAG	3 cut(s)	483, 492, 513
BfmI	CTRYAG	2 cut(s)	181, 219
BisI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
BlsI	GCNGC	8 cut(s)	36, 118, 182, 185, 220, 223, 235, 366
BmcAI	AGTACT	2 cut(s)	502, 511
Bme1390I	CCNGG	2 cut(s)	209, 563
BmeRI	GACNNNNNGTC	1 cut(s)	315
BmeT110I	CYCGRG	1 cut(s)	455
BmrFI	CCNGG	2 cut(s)	209, 563
BmsI	GCATC	1 cut(s)	13
BpuEI	CTTGAG	2 cut(s)	221, 230
BpuMI	CCSGG	1 cut(s)	209
BsaI	GGTCTC	1 cut(s)	197
BsaJI	CCNNGG	4 cut(s)	16, 207, 237, 379
BsaWI	WCCGGW	1 cut(s)	271
Bsc4I	CCNNNNNNNGG	1 cut(s)	214
Bse1I	ACTGG	2 cut(s)	507, 549
BseBI	CCWGG	1 cut(s)	563
BseDI	CCNNGG	4 cut(s)	16, 207, 237, 379
BseLI	CCNNNNNNNGG	1 cut(s)	214
BseNI	ACTGG	2 cut(s)	507, 549
BsePI	GCGCGC	1 cut(s)	171
BseSI	GKGCMC	1 cut(s)	133
BseXI	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
Bsh1236I	CGCG	3 cut(s)	173, 226, 233
Bsh1285I	CGRYCG	1 cut(s)	312
BshFI	GGCC	1 cut(s)	236
BsiEI	CGRYCG	1 cut(s)	312
BsiHKCI	CYCGRG	1 cut(s)	455
BsiSI	CCGG	3 cut(s)	209, 272, 305
BslI	CCNNNNNNNGG	1 cut(s)	214
BsmAI	GTCTC	3 cut(s)	197, 233, 332
BsmBI	CGTCTC	1 cut(s)	233
BsmI	GAATGC	1 cut(s)	445
BsnI	GGCC	1 cut(s)	236
Bso31I	GGTCTC	1 cut(s)	197
BsoBI	CYCGRG	1 cut(s)	455
Bsp1286I	GDGCHC	2 cut(s)	133, 246
Bsp143I	GATC	1 cut(s)	321
BspACI	CCGC	3 cut(s)	116, 233, 278
BspANI	GGCC	1 cut(s)	236
BspFNI	CGCG	3 cut(s)	173, 226, 233
BspMAI	CTGCAG	2 cut(s)	185, 223
BspTNI	GGTCTC	1 cut(s)	197
BsrI	ACTGG	2 cut(s)	507, 549
BssECI	CCNNGG	4 cut(s)	16, 207, 237, 379
BssHII	GCGCGC	1 cut(s)	171
BssMI	GATC	1 cut(s)	321
Bst2UI	CCWGG	1 cut(s)	563
Bst4CI	ACNGT	2 cut(s)	56, 287
Bst6I	CTCTTC	1 cut(s)	245
BstAPI	GCANNNNNTGC	1 cut(s)	451
BstC8I	GCNNGC	2 cut(s)	173, 216
BstDSI	CCRYGG	2 cut(s)	237, 379
BstFNI	CGCG	3 cut(s)	173, 226, 233
BstHHI	GCGC	4 cut(s)	143, 173, 175, 226
BstKTI	GATC	1 cut(s)	324
BstMAI	GTCTC	3 cut(s)	197, 233, 332
BstMBI	GATC	1 cut(s)	321
BstMCI	CGRYCG	1 cut(s)	312
BstMWI	GCNNNNNNNGC	5 cut(s)	147, 172, 177, 230, 451
BstNI	CCWGG	1 cut(s)	563
BstSCI	CCNGG	2 cut(s)	207, 561
BstSFI	CTRYAG	2 cut(s)	181, 219
BstSLI	GKGCMC	1 cut(s)	133
BstUI	CGCG	3 cut(s)	173, 226, 233
BstV1I	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
BsuRI	GGCC	1 cut(s)	236
BtgI	CCRYGG	2 cut(s)	237, 379
BtsI	GCAGTG	1 cut(s)	449
BtsIMutI	CAGTG	2 cut(s)	449, 556
Cac8I	GCNNGC	2 cut(s)	173, 216
CfoI	GCGC	4 cut(s)	143, 173, 175, 226
CseI	GACGC	1 cut(s)	215
Csp6I	GTAC	3 cut(s)	57, 501, 510
CviAII	CATG	3 cut(s)	100, 389, 429
CviQI	GTAC	3 cut(s)	57, 501, 510
DpnI	GATC	1 cut(s)	323
DpnII	GATC	1 cut(s)	321
DriI	GACNNNNNGTC	1 cut(s)	315
EaeI	YGGCCR	1 cut(s)	234
Eam1104I	CTCTTC	1 cut(s)	245
Eam1105I	GACNNNNNGTC	1 cut(s)	315
EarI	CTCTTC	1 cut(s)	245
Eco24I	GRGCYC	1 cut(s)	246
Eco31I	GGTCTC	1 cut(s)	197
Eco57I	CTGAAG	1 cut(s)	540
Eco88I	CYCGRG	1 cut(s)	455
EcoRI	GAATTC	1 cut(s)	532
EcoRII	CCWGG	1 cut(s)	561
EcoT22I	ATGCAT	1 cut(s)	6
EcoT38I	GRGCYC	1 cut(s)	246
Esp3I	CGTCTC	1 cut(s)	233
FaeI	CATG	3 cut(s)	103, 392, 432
FaiI	YATR	8 cut(s)	74, 101, 137, 139, 300, 390, 401, 430
FatI	CATG	3 cut(s)	99, 388, 428
Fnu4HI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
FriOI	GRGCYC	1 cut(s)	246
Fsp4HI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
FspBI	CTAG	3 cut(s)	483, 492, 513
GlaI	GCGC	4 cut(s)	142, 172, 174, 225
GluI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
HaeIII	GGCC	1 cut(s)	236
HapII	CCGG	3 cut(s)	209, 272, 305
HgaI	GACGC	1 cut(s)	215
HhaI	GCGC	4 cut(s)	143, 173, 175, 226
Hin1II	CATG	3 cut(s)	103, 392, 432
Hin6I	GCGC	4 cut(s)	141, 171, 173, 224
HinP1I	GCGC	4 cut(s)	141, 171, 173, 224
HinfI	GANTC	7 cut(s)	12, 65, 253, 268, 295, 384, 554
HpaII	CCGG	3 cut(s)	209, 272, 305
HphI	GGTGA	3 cut(s)	299, 528, 595
Hpy166II	GTNNAC	2 cut(s)	195, 283
Hpy188I	TCNGA	4 cut(s)	321, 332, 520, 559
Hpy188III	TCNNGA	2 cut(s)	200, 247
Hpy8I	GTNNAC	2 cut(s)	195, 283
HpyAV	CCTTC	3 cut(s)	284, 346, 560
HpyCH4III	ACNGT	2 cut(s)	56, 287
HpyCH4V	TGCA	4 cut(s)	4, 183, 221, 399
HpyF10VI	GCNNNNNNNGC	5 cut(s)	147, 172, 177, 230, 451
Hsp92II	CATG	3 cut(s)	103, 392, 432
HspAI	GCGC	4 cut(s)	141, 171, 173, 224
Kzo9I	GATC	1 cut(s)	321
LmnI	GCTCC	1 cut(s)	211
Lsp1109I	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
LweI	GCATC	1 cut(s)	13
MaeI	CTAG	3 cut(s)	483, 492, 513
MaeIII	GTNAC	2 cut(s)	374, 417
MalI	GATC	1 cut(s)	323
MboI	GATC	1 cut(s)	321
MboII	GAAGA	2 cut(s)	262, 487
MhlI	GDGCHC	2 cut(s)	133, 246
MluCI	AATT	3 cut(s)	85, 436, 532
MlyI	GAGTC	2 cut(s)	262, 563
MmeI	TCCRAC	1 cut(s)	582
MnlI	CCTC	4 cut(s)	26, 255, 334, 387
Mph1103I	ATGCAT	1 cut(s)	6
MroXI	GAANNNNTTC	1 cut(s)	294
MslI	CAYNNNNRTG	1 cut(s)	98
MspI	CCGG	3 cut(s)	209, 272, 305
MspR9I	CCNGG	2 cut(s)	209, 563
Mva1269I	GAATGC	1 cut(s)	445
MvaI	CCWGG	1 cut(s)	563
MvnI	CGCG	3 cut(s)	173, 226, 233
MwoI	GCNNNNNNNGC	5 cut(s)	147, 172, 177, 230, 451
NciI	CCSGG	1 cut(s)	209
NdeII	GATC	1 cut(s)	321
NlaIII	CATG	3 cut(s)	103, 392, 432
NmuCI	GTSAC	1 cut(s)	417
NsiI	ATGCAT	1 cut(s)	6
PaeR7I	CTCGAG	1 cut(s)	455
PauI	GCGCGC	1 cut(s)	171
PctI	GAATGC	1 cut(s)	445
PdmI	GAANNNNTTC	1 cut(s)	294
PfeI	GAWTC	5 cut(s)	12, 65, 268, 295, 384
PkrI	GCNGC	8 cut(s)	36, 118, 182, 185, 220, 223, 235, 366
PleI	GAGTC	2 cut(s)	261, 562
PpsI	GAGTC	2 cut(s)	261, 562
Psp6I	CCWGG	1 cut(s)	561
PspGI	CCWGG	1 cut(s)	561
PspXI	VCTCGAGB	1 cut(s)	455
PstI	CTGCAG	2 cut(s)	185, 223
PteI	GCGCGC	1 cut(s)	171
RsaI	GTAC	3 cut(s)	58, 502, 511
RsaNI	GTAC	3 cut(s)	57, 501, 510
RseI	CAYNNNNRTG	1 cut(s)	98
SatI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
Sau3AI	GATC	1 cut(s)	321
ScaI	AGTACT	2 cut(s)	502, 511
SchI	GAGTC	2 cut(s)	262, 563
ScrFI	CCNGG	2 cut(s)	209, 563
SduI	GDGCHC	2 cut(s)	133, 246
SetI	ASST	5 cut(s)	36, 194, 357, 398, 602
SfaNI	GCATC	1 cut(s)	13
SfcI	CTRYAG	2 cut(s)	181, 219
Sfr274I	CTCGAG	1 cut(s)	455
SlaI	CTCGAG	1 cut(s)	455
SmiMI	CAYNNNNRTG	1 cut(s)	98
SmlI	CTYRAG	3 cut(s)	200, 245, 455
SmoI	CTYRAG	3 cut(s)	200, 245, 455
SpeI	ACTAGT	2 cut(s)	491, 512
Sse9I	AATT	3 cut(s)	85, 436, 532
SsiI	CCGC	3 cut(s)	116, 233, 278
SspMI	CTAG	3 cut(s)	483, 492, 513
StyD4I	CCNGG	2 cut(s)	207, 561
TaaI	ACNGT	2 cut(s)	56, 287
TaqI	TCGA	3 cut(s)	90, 456, 473
TaqII	GACCGA	1 cut(s)	326
TasI	AATT	3 cut(s)	85, 436, 532
TatI	WGTACW	2 cut(s)	500, 509
TauI	GCSGC	2 cut(s)	119, 236
TfiI	GAWTC	5 cut(s)	12, 65, 268, 295, 384
TscAI	CASTG	2 cut(s)	456, 556
TseFI	GTSAC	1 cut(s)	417
TseI	GCWGC	6 cut(s)	34, 180, 183, 218, 221, 364
Tsp45I	GTSAC	1 cut(s)	417
TspDTI	ATGAA	2 cut(s)	98, 287
TspGWI	ACGGA	1 cut(s)	396
TspRI	CASTG	2 cut(s)	456, 556
XapI	RAATTY	2 cut(s)	85, 532
XhoI	CTCGAG	1 cut(s)	455
XmnI	GAANNNNTTC	1 cut(s)	294
XspI	CTAG	3 cut(s)	483, 492, 513
ZrmI	AGTACT	2 cut(s)	502, 511
Zsp2I	ATGCAT	1 cut(s)	6

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