Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0003563

Physical Location & Seq

Genomic Coordinates Forward (+)

47553475 .. 47554817

Gene Structure 1343 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG341900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 567 bp

ATGGTAAGCACTGTTCTTCATCACCACCGTCCACACCGCCTCCTCCTCGACCCAGGCCAGCCTGCCAATGAGAGCAGAACACATAATGGACCATACTCGAACGAAGCGAATTTCGACACCAACATGGTGATCATCCTAGCAGCTCTTCTCTGTGCCCTGATATGTGCATTAGGTCTAAACTCAATAGTGAGGTGTGCCCTCAGATGCAGCAGGAGGTTTTCTTTTGAGACCCCAGATGAGGCTGCAGCAAGGTTAGCAGCCACAGGGCTTAAGAAGAGCACATTGAGGCAGATACCCATTGTGTCATATGGGACTGGGGTGCTTAACATTCCTAGTGCCACTGACTGCCCAATTTGCCTTGGGGAATTTTCAGATGGGCAGAAAGTTAGGGTTTTGCCAAAGTGTAACCATGGGTTCCATGTGAGGTGCATAGACACATGGTTCTTGTCACATTCTTCTTGCCCAACTTGCAGGCAGTCATTGCTGGAACCACAACCACAAGGTTCAGATTCTTCAGAAGGACATAATGATGTGGTGGTTGCTGTTGCTGGTGATGAGGCTAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009555 GO:0009791 GO:0009889 GO:0009900 GO:0009901 GO:0009908 GO:0009987 GO:0010498 GO:0010565 GO:0010817 GO:0016567 GO:0016740 GO:0019216 GO:0019217 GO:0019222 GO:0019538 GO:0019787 GO:0019941 GO:0022414 GO:0030163 GO:0031323 GO:0031326 GO:0032350 GO:0032446 GO:0032501 GO:0032502 GO:0032504 GO:0036211 GO:0042304 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0046885 GO:0046890 GO:0048229 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048466 GO:0048608 GO:0048609 GO:0048653 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0051603 GO:0061458 GO:0061630 GO:0061659 GO:0062012 GO:0065007 GO:0065008 GO:0070647 GO:0071704 GO:0080090 GO:0080140 GO:0080141 GO:0090567 GO:0099402 GO:0140096 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

188

Amino Acids

20.36

Weight (kDa)

6.73

Isoelectric Point (pI)

37.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	115 - 158	4e-15	Ring finger domain
zf-RING_11	PF17123	115 - 144	1.4e-12	RING-like zinc finger
zf-rbx1	PF12678	115 - 158	4.8e-07	RING-H2 zinc finger domain
zf-C3HC4_2	PF13923	116 - 157	5.5e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	116 - 157	1.5e-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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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)
AciI	CCGC	1 cut(s)	37
AcsI	RAATTY	2 cut(s)	109, 365
AcuI	CTGAAG	1 cut(s)	498
AfiI	CCNNNNNNNGG	1 cut(s)	238
AflII	CTTAAG	1 cut(s)	269
AjnI	CCWGG	1 cut(s)	52
AluBI	AGCT	1 cut(s)	143
AluI	AGCT	1 cut(s)	143
Alw21I	GWGCWC	1 cut(s)	281
Alw26I	GTCTC	1 cut(s)	221
AoxI	GGCC	1 cut(s)	55
ApeKI	GCWGC	5 cut(s)	140, 207, 242, 245, 257
ApoI	RAATTY	2 cut(s)	109, 365
AspS9I	GGNCC	1 cut(s)	89
AsuHPI	GGTGA	3 cut(s)	14, 139, 563
AvaII	GGWCC	1 cut(s)	89
BaeGI	GKGCMC	2 cut(s)	157, 199
Bbv12I	GWGCWC	1 cut(s)	281
BbvI	GCAGC	5 cut(s)	152, 219, 229, 257, 269
BccI	CCATC	1 cut(s)	368
BciT130I	CCWGG	1 cut(s)	54
BclI	TGATCA	1 cut(s)	129
BcoDI	GTCTC	1 cut(s)	221
BfaI	CTAG	2 cut(s)	137, 333
BfmI	CTRYAG	1 cut(s)	243
BfrI	CTTAAG	1 cut(s)	269
BisI	GCNGC	5 cut(s)	141, 208, 243, 246, 258
BlsI	GCNGC	5 cut(s)	142, 209, 244, 247, 259
Bme1390I	CCNGG	1 cut(s)	54
Bme18I	GGWCC	1 cut(s)	89
BmgT120I	GGNCC	1 cut(s)	89
BmiI	GGNNCC	2 cut(s)	416, 489
BmrFI	CCNGG	1 cut(s)	54
BmrI	ACTGGG	1 cut(s)	324
BmsI	GCATC	1 cut(s)	194
BmuI	ACTGGG	1 cut(s)	324
BsaI	GGTCTC	1 cut(s)	221
BsaJI	CCNNGG	3 cut(s)	52, 358, 409
BsaXI	ACNNNNNCTCC	2 cut(s)	24, 54
Bsc4I	CCNNNNNNNGG	1 cut(s)	238
Bse1I	ACTGG	1 cut(s)	319
Bse3DI	GCAATG	1 cut(s)	479
BseBI	CCWGG	1 cut(s)	54
BseDI	CCNNGG	3 cut(s)	52, 358, 409
BseGI	GGATG	1 cut(s)	132
BseLI	CCNNNNNNNGG	1 cut(s)	238
BseMI	GCAATG	1 cut(s)	479
BseMII	CTCAG	1 cut(s)	214
BseNI	ACTGG	1 cut(s)	319
BseRI	GAGGAG	2 cut(s)	32, 35
BseSI	GKGCMC	2 cut(s)	157, 199
BseXI	GCAGC	5 cut(s)	152, 219, 229, 257, 269
BshFI	GGCC	1 cut(s)	57
BsiHKAI	GWGCWC	1 cut(s)	281
BslFI	GGGAC	1 cut(s)	325
BslI	CCNNNNNNNGG	1 cut(s)	238
BsmAI	GTCTC	1 cut(s)	221
BsmFI	GGGAC	1 cut(s)	325
BsnI	GGCC	1 cut(s)	57
Bso31I	GGTCTC	1 cut(s)	221
Bsp1286I	GDGCHC	3 cut(s)	157, 199, 281
Bsp143I	GATC	1 cut(s)	129
Bsp19I	CCATGG	1 cut(s)	409
BspACI	CCGC	1 cut(s)	37
BspANI	GGCC	1 cut(s)	57
BspCNI	CTCAG	1 cut(s)	213
BspLI	GGNNCC	2 cut(s)	416, 489
BspMAI	CTGCAG	1 cut(s)	247
BspQI	GCTCTTC	2 cut(s)	150, 269
BspTI	CTTAAG	1 cut(s)	269
BspTNI	GGTCTC	1 cut(s)	221
BsrDI	GCAATG	1 cut(s)	479
BsrI	ACTGG	1 cut(s)	319
BssECI	CCNNGG	3 cut(s)	52, 358, 409
BssMI	GATC	1 cut(s)	129
BssT1I	CCWWGG	2 cut(s)	358, 409
Bst2UI	CCWGG	1 cut(s)	54
Bst4CI	ACNGT	2 cut(s)	13, 29
Bst6I	CTCTTC	2 cut(s)	150, 269
BstAFI	CTTAAG	1 cut(s)	269
BstAPI	GCANNNNNTGC	1 cut(s)	481
BstC8I	GCNNGC	3 cut(s)	59, 63, 473
BstDEI	CTNAG	1 cut(s)	200
BstDSI	CCRYGG	1 cut(s)	409
BstF5I	GGATG	1 cut(s)	132
BstKTI	GATC	1 cut(s)	132
BstMAI	GTCTC	1 cut(s)	221
BstMBI	GATC	1 cut(s)	129
BstMWI	GCNNNNNNNGC	4 cut(s)	254, 354, 468, 481
BstNI	CCWGG	1 cut(s)	54
BstSCI	CCNGG	1 cut(s)	52
BstSFI	CTRYAG	1 cut(s)	243
BstSLI	GKGCMC	2 cut(s)	157, 199
BstV1I	GCAGC	5 cut(s)	152, 219, 229, 257, 269
BsuRI	GGCC	1 cut(s)	57
BtgI	CCRYGG	1 cut(s)	409
BtsCI	GGATG	1 cut(s)	132
BtsIMutI	CAGTG	2 cut(s)	9, 339
Cac8I	GCNNGC	3 cut(s)	59, 63, 473
Cfr13I	GGNCC	1 cut(s)	89
CviAII	CATG	4 cut(s)	124, 410, 419, 438
CviJI	RGCY	7 cut(s)	57, 61, 143, 242, 260, 268, 560
CviKI_1	RGCY	7 cut(s)	57, 61, 143, 242, 260, 268, 560
DdeI	CTNAG	1 cut(s)	200
DpnI	GATC	1 cut(s)	131
DpnII	GATC	1 cut(s)	129
Eam1104I	CTCTTC	2 cut(s)	150, 269
EarI	CTCTTC	2 cut(s)	150, 269
Eco130I	CCWWGG	2 cut(s)	358, 409
Eco31I	GGTCTC	1 cut(s)	221
Eco47I	GGWCC	1 cut(s)	89
Eco57I	CTGAAG	1 cut(s)	498
EcoRII	CCWGG	1 cut(s)	52
EcoT14I	CCWWGG	2 cut(s)	358, 409
ErhI	CCWWGG	2 cut(s)	358, 409
FaeI	CATG	4 cut(s)	127, 413, 422, 441
FaqI	GGGAC	1 cut(s)	325
FatI	CATG	4 cut(s)	123, 409, 418, 437
FauNDI	CATATG	1 cut(s)	307
FbaI	TGATCA	1 cut(s)	129
Fnu4HI	GCNGC	5 cut(s)	141, 208, 243, 246, 258
FokI	GGATG	1 cut(s)	119
Fsp4HI	GCNGC	5 cut(s)	141, 208, 243, 246, 258
FspBI	CTAG	2 cut(s)	137, 333
GluI	GCNGC	5 cut(s)	141, 208, 243, 246, 258
HaeIII	GGCC	1 cut(s)	57
Hin1II	CATG	4 cut(s)	127, 413, 422, 441
HinfI	GANTC	1 cut(s)	509
HphI	GGTGA	3 cut(s)	14, 139, 563
Hpy166II	GTNNAC	1 cut(s)	32
Hpy188I	TCNGA	4 cut(s)	203, 373, 508, 517
Hpy8I	GTNNAC	1 cut(s)	32
HpyAV	CCTTC	1 cut(s)	512
HpyCH4III	ACNGT	2 cut(s)	13, 29
HpyCH4V	TGCA	5 cut(s)	167, 207, 245, 429, 471
HpyF10VI	GCNNNNNNNGC	4 cut(s)	254, 354, 468, 481
HpyF3I	CTNAG	1 cut(s)	200
Hsp92II	CATG	4 cut(s)	127, 413, 422, 441
Ksp22I	TGATCA	1 cut(s)	129
Kzo9I	GATC	1 cut(s)	129
LguI	GCTCTTC	2 cut(s)	150, 269
Lsp1109I	GCAGC	5 cut(s)	152, 219, 229, 257, 269
LweI	GCATC	1 cut(s)	194
MaeI	CTAG	2 cut(s)	137, 333
MaeIII	GTNAC	2 cut(s)	404, 447
MalI	GATC	1 cut(s)	131
MboI	GATC	1 cut(s)	129
MboII	GAAGA	5 cut(s)	8, 137, 286, 447, 504
MhlI	GDGCHC	3 cut(s)	157, 199, 281
MluCI	AATT	4 cut(s)	109, 351, 365, 562
MseI	TTAA	2 cut(s)	270, 324
MslI	CAYNNNNRTG	2 cut(s)	122, 528
MspCI	CTTAAG	1 cut(s)	269
MspR9I	CCNGG	1 cut(s)	54
MvaI	CCWGG	1 cut(s)	54
MwoI	GCNNNNNNNGC	4 cut(s)	254, 354, 468, 481
NcoI	CCATGG	1 cut(s)	409
NdeI	CATATG	1 cut(s)	307
NdeII	GATC	1 cut(s)	129
NlaIII	CATG	4 cut(s)	127, 413, 422, 441
NlaIV	GGNNCC	2 cut(s)	416, 489
NmuCI	GTSAC	1 cut(s)	447
PciSI	GCTCTTC	2 cut(s)	150, 269
PcsI	WCGNNNNNNNCGW	1 cut(s)	104
PfeI	GAWTC	1 cut(s)	509
PkrI	GCNGC	5 cut(s)	142, 209, 244, 247, 259
Psp6I	CCWGG	1 cut(s)	52
PspGI	CCWGG	1 cut(s)	52
PspN4I	GGNNCC	2 cut(s)	416, 489
PspPI	GGNCC	1 cut(s)	89
PsrI	GAACNNNNNNTAC	1 cut(s)	29
PstI	CTGCAG	1 cut(s)	247
RseI	CAYNNNNRTG	2 cut(s)	122, 528
SapI	GCTCTTC	2 cut(s)	150, 269
SaqAI	TTAA	2 cut(s)	270, 324
SatI	GCNGC	5 cut(s)	141, 208, 243, 246, 258
Sau3AI	GATC	1 cut(s)	129
Sau96I	GGNCC	1 cut(s)	89
ScrFI	CCNGG	1 cut(s)	54
SduI	GDGCHC	3 cut(s)	157, 199, 281
SetI	ASST	7 cut(s)	145, 175, 194, 218, 254, 428, 505
SfaNI	GCATC	1 cut(s)	194
SfcI	CTRYAG	1 cut(s)	243
SinI	GGWCC	1 cut(s)	89
SmiMI	CAYNNNNRTG	2 cut(s)	122, 528
SmlI	CTYRAG	1 cut(s)	269
SmoI	CTYRAG	1 cut(s)	269
Sse9I	AATT	4 cut(s)	109, 351, 365, 562
SsiI	CCGC	1 cut(s)	37
SspMI	CTAG	2 cut(s)	137, 333
StyD4I	CCNGG	1 cut(s)	52
StyI	CCWWGG	2 cut(s)	358, 409
TaaI	ACNGT	2 cut(s)	13, 29
TaqI	TCGA	3 cut(s)	48, 98, 114
TasI	AATT	4 cut(s)	109, 351, 365, 562
TfiI	GAWTC	1 cut(s)	509
Tru1I	TTAA	2 cut(s)	270, 324
Tru9I	TTAA	2 cut(s)	270, 324
TscAI	CASTG	2 cut(s)	16, 346
TseFI	GTSAC	1 cut(s)	447
TseI	GCWGC	5 cut(s)	140, 207, 242, 245, 257
Tsp45I	GTSAC	1 cut(s)	447
TspDTI	ATGAA	1 cut(s)	8
TspRI	CASTG	2 cut(s)	16, 346
Vha464I	CTTAAG	1 cut(s)	269
VpaK11BI	GGWCC	1 cut(s)	89
XapI	RAATTY	2 cut(s)	109, 365
XspI	CTAG	2 cut(s)	137, 333

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