Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0002317

Physical Location & Seq

Genomic Coordinates Reverse (-)

49697782 .. 49702470

Gene Structure 4689 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00034270.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 351 bp

ATGTCTGCCGAAGAAGATAGACTATGGAACATTGTGAGGGCTAATTTTTTAGATTTTAATGCCTGGACTGCTTTAATTGAAGAGACAGAGAAGGTGGCAGAGGATAACATCTTAAAAATTCGAAAAGTTTATGATGCTTTTCTAGCAGAGTTTCCTTTGTGTTATGGGTATTGGAAAAAGTATGCAGATCATGAGGCACGTTTTGGTGTTATTGATAAAGTTGTGGAGGTTTATGAACGAGCAGTTCAAGCTATTACCTATTCAGTTGACATTTGGTTGCATTACTGCACATTTGCCACAACTACTTTTGGAGATCCAGACACTATCAGAAGTGTGATATCAGCTTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000243 GO:0000245 GO:0000375 GO:0000377 GO:0000395 GO:0000398 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005685 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0022607 GO:0022613 GO:0022618 GO:0030532 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0065003 GO:0071004 GO:0071010 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097525 GO:0120114 GO:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

116

Amino Acids

13.5

Weight (kDa)

4.72

Isoelectric Point (pI)

42.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_PRP39_N	PF23240	6 - 107	8.3e-41	PRP39 N-terminal HAT repeat
Suf	PF05843	7 - 99	7e-12	Suppressor of forked protein (Suf)
HAT_Syf1_CNRKL1_N	PF23233	53 - 100	2.5e-06	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_PRP39_C	PF23241	58 - 112	3.5e-06	PRP39 C-terminal HAT repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

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Orthologous Genes (Group: OG0002317)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G04080 AT1G04080 AT1G04080 AT1G04080 AT1G04080
fragaria_vesca	FvH4_2g20550
malus_domestica	MD00G1060100.v1.1
prunus_persica	Prupe.8G215900_v2.0.a1 Prupe.8G215900_v2.0.a1 Prupe.8G215900_v2.0.a1 Prupe.8G215900_v2.0.a1
pyrus_communis	pycom05g17390 pycom10g15270
rosa_chinensis	RchiOBHm_Chr1g0327141 RchiOBHm_Chr6g0282561 RchiOBHm_Chr6g0286711
rosa_laevigata	RLG00000007391 RLG00000012550 RLG00000030995
rosa_multiflora	Rmu_co8283097.1_g000001 Rmu_co8332197.1_g000001 Rmu_sc0001468.1_g000022
rosa_roxburghii	Rroxscaffold_1G00034270 Rroxscaffold_1G00060390 Rroxscaffold_7G00182090
rosa_rugosa	Rorug05G0468800 Rorug06G0182100 Rorug06G0182200
rosa_samantha	Rh2CG306300 Rh5BG355000 Rh5BG355100 Rh5BG357900 Rh6AG023000 Rh6AG294900 Rh6BG204700 Rh6BG298100 Rh6BG298200 Rh6CG298600 Rh6DG290600
rosa_wichuraiana	Rw1G013170 Rw5G035150 Rw6G025370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	308
AcsI	RAATTY	1 cut(s)	117
AgsI	TTSAA	2 cut(s)	80, 248
AjnI	CCWGG	1 cut(s)	62
AluBI	AGCT	2 cut(s)	251, 344
AluI	AGCT	2 cut(s)	251, 344
Alw26I	GTCTC	1 cut(s)	77
AlwI	GGATC	1 cut(s)	308
ApoI	RAATTY	1 cut(s)	117
AsuII	TTCGAA	1 cut(s)	121
BciT130I	CCWGG	1 cut(s)	64
BcoDI	GTCTC	1 cut(s)	77
BfaI	CTAG	2 cut(s)	143, 349
Bme1390I	CCNGG	1 cut(s)	64
BmrFI	CCNGG	1 cut(s)	64
BmsI	GCATC	1 cut(s)	124
Bpu14I	TTCGAA	1 cut(s)	121
BseBI	CCWGG	1 cut(s)	64
BsgI	GTGCAG	1 cut(s)	271
BsmAI	GTCTC	1 cut(s)	77
Bsp119I	TTCGAA	1 cut(s)	121
Bsp143I	GATC	2 cut(s)	187, 313
BspHI	TCATGA	1 cut(s)	190
BspPI	GGATC	1 cut(s)	308
BspT104I	TTCGAA	1 cut(s)	121
BssMI	GATC	2 cut(s)	187, 313
Bst2UI	CCWGG	1 cut(s)	64
Bst6I	CTCTTC	1 cut(s)	75
BstBI	TTCGAA	1 cut(s)	121
BstKTI	GATC	2 cut(s)	190, 316
BstMAI	GTCTC	1 cut(s)	77
BstMBI	GATC	2 cut(s)	187, 313
BstMWI	GCNNNNNNNGC	3 cut(s)	68, 143, 248
BstNI	CCWGG	1 cut(s)	64
BstSCI	CCNGG	1 cut(s)	62
BstX2I	RGATCY	1 cut(s)	313
BstYI	RGATCY	1 cut(s)	313
CciI	TCATGA	1 cut(s)	190
CviAII	CATG	1 cut(s)	191
CviJI	RGCY	3 cut(s)	41, 251, 344
CviKI_1	RGCY	3 cut(s)	41, 251, 344
DpnI	GATC	2 cut(s)	189, 315
DpnII	GATC	2 cut(s)	187, 313
Eam1104I	CTCTTC	1 cut(s)	75
EarI	CTCTTC	1 cut(s)	75
Eco32I	GATATC	1 cut(s)	339
EcoRII	CCWGG	1 cut(s)	62
EcoRV	GATATC	1 cut(s)	339
FaeI	CATG	1 cut(s)	194
FaiI	YATR	6 cut(s)	25, 132, 165, 183, 192, 234
FatI	CATG	1 cut(s)	190
FspBI	CTAG	2 cut(s)	143, 349
Hin1II	CATG	1 cut(s)	194
HincII	GTYRAC	1 cut(s)	268
HindII	GTYRAC	1 cut(s)	268
Hpy166II	GTNNAC	1 cut(s)	268
Hpy188I	TCNGA	1 cut(s)	329
Hpy188III	TCNNGA	2 cut(s)	191, 317
Hpy8I	GTNNAC	1 cut(s)	268
HpyAV	CCTTC	1 cut(s)	85
HpyCH4IV	ACGT	1 cut(s)	199
HpyCH4V	TGCA	3 cut(s)	185, 280, 288
HpyF10VI	GCNNNNNNNGC	3 cut(s)	68, 143, 248
HpySE526I	ACGT	1 cut(s)	199
Hsp92II	CATG	1 cut(s)	194
Kzo9I	GATC	2 cut(s)	187, 313
LpnPI	CCDG	3 cut(s)	49, 76, 330
LweI	GCATC	1 cut(s)	124
MaeI	CTAG	2 cut(s)	143, 349
MaeII	ACGT	1 cut(s)	199
MalI	GATC	2 cut(s)	189, 315
MboI	GATC	2 cut(s)	187, 313
MboII	GAAGA	3 cut(s)	23, 26, 92
MflI	RGATCY	1 cut(s)	313
MluCI	AATT	3 cut(s)	43, 75, 117
MnlI	CCTC	4 cut(s)	30, 94, 187, 220
MseI	TTAA	3 cut(s)	57, 74, 113
MspR9I	CCNGG	1 cut(s)	64
MvaI	CCWGG	1 cut(s)	64
MwoI	GCNNNNNNNGC	3 cut(s)	68, 143, 248
NdeII	GATC	2 cut(s)	187, 313
NlaIII	CATG	1 cut(s)	194
NspV	TTCGAA	1 cut(s)	121
PagI	TCATGA	1 cut(s)	190
Psp6I	CCWGG	1 cut(s)	62
PspGI	CCWGG	1 cut(s)	62
PsuI	RGATCY	1 cut(s)	313
SaqAI	TTAA	3 cut(s)	57, 74, 113
Sau3AI	GATC	2 cut(s)	187, 313
ScrFI	CCNGG	1 cut(s)	64
SetI	ASST	6 cut(s)	96, 202, 231, 253, 260, 346
SfaNI	GCATC	1 cut(s)	124
SfuI	TTCGAA	1 cut(s)	121
SgeI	CNNG	8 cut(s)	75, 76, 155, 203, 210, 251, 260, 329
Sse9I	AATT	3 cut(s)	43, 75, 117
SspMI	CTAG	2 cut(s)	143, 349
StyD4I	CCNGG	1 cut(s)	62
TaiI	ACGT	1 cut(s)	202
TaqI	TCGA	1 cut(s)	121
TasI	AATT	3 cut(s)	43, 75, 117
Tru1I	TTAA	3 cut(s)	57, 74, 113
Tru9I	TTAA	3 cut(s)	57, 74, 113
TspDTI	ATGAA	1 cut(s)	249
XapI	RAATTY	1 cut(s)	117
XspI	CTAG	2 cut(s)	143, 349

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