Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003598

Physical Location & Seq

Genomic Coordinates Forward (+)

42667661 .. 42671987

Gene Structure 4327 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00317430.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGAATGGAAAAAGTGGAGGTGACCCCTTCCACTTTGGTAACACCATAATGGAGGGTTGCTTGATCAAATGCTCTCACCGCAGCGCTCTCTTGAAAACCCTTAAACCTCTTTATCCCAAAACACACATTTGCTTCTCTTCAACACCAATTCGCTACGGCGAAGCCTTCCGATCGCCTCCCCGAGCCTACAACGCATTGTTGATGGACGCCGAGTCCACAGAGAGGGGAGAGCCTCTTGGTGAAACAGTGGGCTATAAAGTTGGATTAGAGGGAATGAAAGAAAAAAAAATACGCATCTCCTTTTCTGTACCAGTGGTGAGAGAAAAAGAAAAGGCGATGGATTTCTGGCTTCTTCTCCTCCTCCTCTTCCTTATTGTTGTGTTGGTTCAAGCTTTCTGGAAATATACATCCTTCTCATACCACAAAAATGCCTTCATCTATTGCATGGTAAAGCTTTATGACCATCGCATAATCCAAAGAGATGCTGTCCAAACTTATGAGGCGCATGTGAATTCCCATACTCGTTTGCAGCTTGGAGTTGATCCATCTGAGCGATTTTTCATATCAGGTGGAGAGGACTGCAAGTTAAGACTTTGGAGTATAAAGTCAGGTGAACTGCTTTTTGAGGAGAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0006139 GO:0006396 GO:0006464 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0019538 GO:0030532 GO:0031461 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0043687 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071011 GO:0071013 GO:0071704 GO:0080008 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1901564 GO:1902494 GO:1990234 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

211

Amino Acids

24.24

Weight (kDa)

9.02

Isoelectric Point (pI)

27.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_DCAF4	PF23761	148 - 207	7.2e-08	DDB1- and CUL4-associated factor 4 beta-propeller domain

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: OG0003598)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G17370 AT5G17370
fragaria_vesca	FvH4_3g13240 FvH4_3g13240 FvH4_3g13240 FvH4_3g13240 FvH4_3g13240
malus_domestica	MD05G1243800.v1.1
prunus_persica	Prupe.4G119800_v2.0.a1 Prupe.4G119800_v2.0.a1 Prupe.4G119800_v2.0.a1 Prupe.4G119800_v2.0.a1
pyrus_communis	pycom05g22030 pycom10g18960
rosa_chinensis	RchiOBHm_Chr5g0021601 RchiOBHm_Chr5g0021611 RchiOBHm_Chr5g0021701
rosa_laevigata	RLG00000032617
rosa_multiflora	Rmu_sc0009984.1_g000013 Rmu_sc0016972.1_g000002
rosa_roxburghii	Rroxscaffold_1G00057050 Rroxscaffold_2G00125890 Rroxscaffold_3G00228540 Rroxscaffold_3G00229610 Rroxscaffold_4G00317430
rosa_rugosa	Rorug05G0067600 Rorug05G0067700 Rorug05G0067800
rosa_samantha	Rh5AG157000 Rh5BG156500 Rh5CG170800 Rh5DG156800
rosa_wichuraiana	Rw0G000530 Rw0G007040 Rw5G013950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	79
AclWI	GGATC	1 cut(s)	536
AcsI	RAATTY	1 cut(s)	511
AcyI	GRCGYC	1 cut(s)	207
AfaI	GTAC	1 cut(s)	309
AfeI	AGCGCT	1 cut(s)	85
AfiI	CCNNNNNNNGG	1 cut(s)	222
AgsI	TTSAA	3 cut(s)	94, 141, 389
AhdI	GACNNNNNGTC	1 cut(s)	211
AluBI	AGCT	3 cut(s)	392, 454, 532
AluI	AGCT	3 cut(s)	392, 454, 532
AlwI	GGATC	1 cut(s)	536
Ama87I	CYCGRG	1 cut(s)	180
Aor51HI	AGCGCT	1 cut(s)	85
ApeKI	GCWGC	2 cut(s)	81, 529
ApoI	RAATTY	1 cut(s)	511
AspLEI	GCGC	2 cut(s)	86, 505
AsuHPI	GGTGA	5 cut(s)	32, 68, 251, 328, 623
AvaI	CYCGRG	1 cut(s)	180
BbvI	GCAGC	2 cut(s)	93, 541
BccI	CCATC	4 cut(s)	196, 331, 471, 553
BceAI	ACGGC	1 cut(s)	172
BclI	TGATCA	1 cut(s)	63
BfoI	RGCGCY	1 cut(s)	87
BisI	GCNGC	2 cut(s)	82, 530
BlsI	GCNGC	2 cut(s)	83, 531
BmeRI	GACNNNNNGTC	1 cut(s)	211
BmeT110I	CYCGRG	1 cut(s)	180
BmsI	GCATC	2 cut(s)	303, 472
BsaHI	GRCGYC	1 cut(s)	207
Bsc4I	CCNNNNNNNGG	1 cut(s)	222
Bse1I	ACTGG	1 cut(s)	311
BseGI	GGATG	1 cut(s)	407
BseLI	CCNNNNNNNGG	1 cut(s)	222
BseMII	CTCAG	1 cut(s)	540
BseNI	ACTGG	1 cut(s)	311
BseRI	GAGGAG	3 cut(s)	347, 350, 353
BseXI	GCAGC	2 cut(s)	93, 541
Bsh1285I	CGRYCG	1 cut(s)	173
BsiEI	CGRYCG	1 cut(s)	173
BsiHKCI	CYCGRG	1 cut(s)	180
BslI	CCNNNNNNNGG	1 cut(s)	222
BsoBI	CYCGRG	1 cut(s)	180
Bsp143I	GATC	3 cut(s)	63, 170, 541
BspACI	CCGC	1 cut(s)	79
BspCNI	CTCAG	1 cut(s)	541
BspPI	GGATC	1 cut(s)	536
BsrI	ACTGG	1 cut(s)	311
BssMI	GATC	3 cut(s)	63, 170, 541
BssNI	GRCGYC	1 cut(s)	207
Bst4CI	ACNGT	1 cut(s)	247
Bst6I	CTCTTC	2 cut(s)	142, 371
BstACI	GRCGYC	1 cut(s)	207
BstDEI	CTNAG	1 cut(s)	549
BstEII	GGTNACC	1 cut(s)	20
BstF5I	GGATG	1 cut(s)	407
BstH2I	RGCGCY	1 cut(s)	87
BstHHI	GCGC	2 cut(s)	86, 505
BstKTI	GATC	3 cut(s)	66, 173, 544
BstMBI	GATC	3 cut(s)	63, 170, 541
BstMCI	CGRYCG	1 cut(s)	173
BstMWI	GCNNNNNNNGC	2 cut(s)	78, 191
BstNSI	RCATGY	1 cut(s)	509
BstPI	GGTNACC	1 cut(s)	20
BstV1I	GCAGC	2 cut(s)	93, 541
BtgZI	GCGATG	2 cut(s)	350, 449
BtsCI	GGATG	1 cut(s)	407
BtsIMutI	CAGTG	2 cut(s)	252, 318
CfoI	GCGC	2 cut(s)	86, 505
CseI	GACGC	1 cut(s)	215
Csp6I	GTAC	1 cut(s)	308
CviAII	CATG	2 cut(s)	445, 506
CviJI	RGCY	8 cut(s)	164, 185, 232, 252, 349, 392, 454, 532
CviKI_1	RGCY	8 cut(s)	164, 185, 232, 252, 349, 392, 454, 532
CviQI	GTAC	1 cut(s)	308
DdeI	CTNAG	1 cut(s)	549
DpnI	GATC	3 cut(s)	65, 172, 543
DpnII	GATC	3 cut(s)	63, 170, 541
DriI	GACNNNNNGTC	1 cut(s)	211
Eam1104I	CTCTTC	2 cut(s)	142, 371
Eam1105I	GACNNNNNGTC	1 cut(s)	211
EarI	CTCTTC	2 cut(s)	142, 371
Eco47III	AGCGCT	1 cut(s)	85
Eco88I	CYCGRG	1 cut(s)	180
Eco91I	GGTNACC	1 cut(s)	20
EcoO65I	GGTNACC	1 cut(s)	20
EcoRI	GAATTC	1 cut(s)	511
FaeI	CATG	2 cut(s)	448, 509
FatI	CATG	2 cut(s)	444, 505
FbaI	TGATCA	1 cut(s)	63
Fnu4HI	GCNGC	2 cut(s)	82, 530
FokI	GGATG	1 cut(s)	394
Fsp4HI	GCNGC	2 cut(s)	82, 530
GlaI	GCGC	2 cut(s)	85, 504
GluI	GCNGC	2 cut(s)	82, 530
HaeII	RGCGCY	1 cut(s)	87
HgaI	GACGC	1 cut(s)	215
HhaI	GCGC	2 cut(s)	86, 505
Hin1I	GRCGYC	1 cut(s)	207
Hin1II	CATG	2 cut(s)	448, 509
Hin6I	GCGC	2 cut(s)	84, 503
HinP1I	GCGC	2 cut(s)	84, 503
HindIII	AAGCTT	2 cut(s)	390, 452
HinfI	GANTC	1 cut(s)	212
HphI	GGTGA	5 cut(s)	32, 68, 251, 328, 623
Hpy166II	GTNNAC	2 cut(s)	216, 614
Hpy188I	TCNGA	2 cut(s)	170, 550
Hpy188III	TCNNGA	2 cut(s)	91, 397
Hpy8I	GTNNAC	2 cut(s)	216, 614
HpyAV	CCTTC	4 cut(s)	37, 175, 421, 442
HpyCH4III	ACNGT	1 cut(s)	247
HpyCH4V	TGCA	3 cut(s)	444, 529, 582
HpyF10VI	GCNNNNNNNGC	2 cut(s)	78, 191
HpyF3I	CTNAG	1 cut(s)	549
Hsp92I	GRCGYC	1 cut(s)	207
Hsp92II	CATG	2 cut(s)	448, 509
HspAI	GCGC	2 cut(s)	84, 503
Ksp22I	TGATCA	1 cut(s)	63
Kzo9I	GATC	3 cut(s)	63, 170, 541
LpnPI	CCDG	5 cut(s)	324, 331, 382, 552, 594
Lsp1109I	GCAGC	2 cut(s)	93, 541
LweI	GCATC	2 cut(s)	303, 472
MaeIII	GTNAC	2 cut(s)	20, 38
MalI	GATC	3 cut(s)	65, 172, 543
MboI	GATC	3 cut(s)	63, 170, 541
MboII	GAAGA	3 cut(s)	129, 344, 358
MluCI	AATT	2 cut(s)	147, 511
MlyI	GAGTC	1 cut(s)	221
MmeI	TCCRAC	1 cut(s)	241
MseI	TTAA	2 cut(s)	102, 587
MslI	CAYNNNNRTG	2 cut(s)	47, 426
MwoI	GCNNNNNNNGC	2 cut(s)	78, 191
NdeII	GATC	3 cut(s)	63, 170, 541
NlaIII	CATG	2 cut(s)	448, 509
NmeAIII	GCCGAG	1 cut(s)	235
NmuCI	GTSAC	1 cut(s)	20
NspI	RCATGY	1 cut(s)	509
PkrI	GCNGC	2 cut(s)	83, 531
Ple19I	CGATCG	1 cut(s)	173
PleI	GAGTC	1 cut(s)	220
PpsI	GAGTC	1 cut(s)	220
PspEI	GGTNACC	1 cut(s)	20
PvuI	CGATCG	1 cut(s)	173
RsaI	GTAC	1 cut(s)	309
RsaNI	GTAC	1 cut(s)	308
RseI	CAYNNNNRTG	2 cut(s)	47, 426
SaqAI	TTAA	2 cut(s)	102, 587
SatI	GCNGC	2 cut(s)	82, 530
Sau3AI	GATC	3 cut(s)	63, 170, 541
SchI	GAGTC	1 cut(s)	221
SetI	ASST	7 cut(s)	22, 109, 394, 456, 534, 571, 613
SfaNI	GCATC	2 cut(s)	303, 472
SmiMI	CAYNNNNRTG	2 cut(s)	47, 426
Sse9I	AATT	2 cut(s)	147, 511
SsiI	CCGC	1 cut(s)	79
TaaI	ACNGT	1 cut(s)	247
TasI	AATT	2 cut(s)	147, 511
Tru1I	TTAA	2 cut(s)	102, 587
Tru9I	TTAA	2 cut(s)	102, 587
TscAI	CASTG	2 cut(s)	252, 318
TseFI	GTSAC	1 cut(s)	20
TseI	GCWGC	2 cut(s)	81, 529
Tsp45I	GTSAC	1 cut(s)	20
TspDTI	ATGAA	4 cut(s)	17, 290, 424, 550
TspRI	CASTG	2 cut(s)	252, 318
XapI	RAATTY	1 cut(s)	511
XceI	RCATGY	1 cut(s)	509

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