Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0012561

Physical Location & Seq

Genomic Coordinates Reverse (-)

3489371 .. 3498056

Gene Structure 8686 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG043500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGCTCTTTAAGGTATTCTCGTGGGAACCAATAAGATGTCATGATGCTGTGGATGTGGGTTTGGTCACTCTTCAGCTTCCTGATCACGATGTAACTTTTAATTCAGCTGAGGATGCACAGAATAGAGTGGCAACATATACTCTTTGTCAACTATTTCCTGATCTCCCAATCCATCTTGTAATTACTGCGCCTTATGCTGCTCTAGTCGTTCAATGGAAGGAAGGGGAAACAATAACCAATGTAGAAGATAGTGTTAAGGACCGAAGAGCTACTTTTGTGGATTCACTATTGAAAGCTGATGGTTCTACTTCAACTTTTGCTGCTAATGTTGTGTATGATTCTGATTCTCTTCCTAACGTGGTTCTCCAACTCCAGGTTCAAGAACCTAGAAATGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0016282 GO:0032991 GO:0043021 GO:0043024 GO:0044424 GO:0044444 GO:0044464 GO:0044877 GO:0070993 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD HA2 Helicase_C OB_NTP_bind

Protein Analysis

132

Amino Acids

14.68

Weight (kDa)

4.5

Isoelectric Point (pI)

38.99

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0012561)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g12840
malus_domestica	MD15G1256900.v1.1
rosa_chinensis	RchiOBHm_Chr3g0479601 RchiOBHm_Chr7g0193871
rosa_multiflora	Rmu_sc0002389.1_g000026 Rmu_sc0002389.1_g000027 Rmu_sc0002571.1_g000011 Rmu_sc0003303.1_g000014 Rmu_sc0029350.1_g000001
rosa_roxburghii	Rroxscaffold_4G00313860
rosa_rugosa	Rorug02G0091200
rosa_samantha	Rh2AG139700 Rh2BG142900 Rh2CG148000 Rh5AG043500 Rh5CG049200 Rh7BG234300 Rh7CG299600 Rh7DG358800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcuI	CTGAAG	1 cut(s)	56
AfiI	CCNNNNNNNGG	1 cut(s)	373
AgsI	TTSAA	4 cut(s)	212, 292, 312, 380
AjnI	CCWGG	1 cut(s)	372
AjuI	GAANNNNNNNTTGG	2 cut(s)	360, 392
AluBI	AGCT	4 cut(s)	76, 107, 269, 296
AluI	AGCT	4 cut(s)	76, 107, 269, 296
ApeKI	GCWGC	2 cut(s)	197, 320
AspLEI	GCGC	1 cut(s)	190
AspS9I	GGNCC	1 cut(s)	259
AvaII	GGWCC	1 cut(s)	259
BauI	CACGAG	1 cut(s)	19
BbvCI	CCTCAGC	1 cut(s)	108
BbvI	GCAGC	2 cut(s)	184, 307
BccI	CCATC	2 cut(s)	180, 293
BciT130I	CCWGG	1 cut(s)	374
BclI	TGATCA	1 cut(s)	82
BfaI	CTAG	2 cut(s)	203, 387
BisI	GCNGC	2 cut(s)	198, 321
BlsI	GCNGC	2 cut(s)	199, 322
Bme1390I	CCNGG	1 cut(s)	374
Bme18I	GGWCC	1 cut(s)	259
BmgT120I	GGNCC	1 cut(s)	259
BmiI	GGNNCC	1 cut(s)	27
BmrFI	CCNGG	1 cut(s)	374
BmsI	GCATC	2 cut(s)	34, 103
BpmI	CTGGAG	1 cut(s)	356
Bpu10I	CCTNAGC	1 cut(s)	108
Bsc4I	CCNNNNNNNGG	1 cut(s)	373
BseBI	CCWGG	1 cut(s)	374
BseGI	GGATG	2 cut(s)	58, 118
BseLI	CCNNNNNNNGG	1 cut(s)	373
BseMII	CTCAG	1 cut(s)	99
BseXI	GCAGC	2 cut(s)	184, 307
BslI	CCNNNNNNNGG	1 cut(s)	373
Bsp143I	GATC	2 cut(s)	82, 160
BspCNI	CTCAG	1 cut(s)	100
BspHI	TCATGA	1 cut(s)	40
BspLI	GGNNCC	1 cut(s)	27
BspQI	GCTCTTC	1 cut(s)	259
BssMI	GATC	2 cut(s)	82, 160
BssSI	CACGAG	1 cut(s)	19
Bst2BI	CACGAG	1 cut(s)	19
Bst2UI	CCWGG	1 cut(s)	374
Bst6I	CTCTTC	3 cut(s)	75, 259, 354
BstDEI	CTNAG	1 cut(s)	108
BstF5I	GGATG	2 cut(s)	58, 118
BstHHI	GCGC	1 cut(s)	190
BstKTI	GATC	2 cut(s)	85, 163
BstMBI	GATC	2 cut(s)	82, 160
BstMWI	GCNNNNNNNGC	2 cut(s)	113, 194
BstNI	CCWGG	1 cut(s)	374
BstSCI	CCNGG	1 cut(s)	372
BstV1I	GCAGC	2 cut(s)	184, 307
BtsCI	GGATG	2 cut(s)	58, 118
CciI	TCATGA	1 cut(s)	40
CfoI	GCGC	1 cut(s)	190
Cfr13I	GGNCC	1 cut(s)	259
CviAII	CATG	1 cut(s)	41
CviJI	RGCY	4 cut(s)	76, 107, 269, 296
CviKI_1	RGCY	4 cut(s)	76, 107, 269, 296
DdeI	CTNAG	1 cut(s)	108
DpnI	GATC	2 cut(s)	84, 162
DpnII	GATC	2 cut(s)	82, 160
Eam1104I	CTCTTC	3 cut(s)	75, 259, 354
EarI	CTCTTC	3 cut(s)	75, 259, 354
Eco47I	GGWCC	1 cut(s)	259
Eco57I	CTGAAG	1 cut(s)	56
EcoRII	CCWGG	1 cut(s)	372
EcoT22I	ATGCAT	1 cut(s)	397
FaeI	CATG	1 cut(s)	44
FaiI	YATR	6 cut(s)	42, 136, 138, 195, 336, 397
FalI	AAGNNNNNCTT	2 cut(s)	256, 288
FatI	CATG	1 cut(s)	40
FbaI	TGATCA	1 cut(s)	82
Fnu4HI	GCNGC	2 cut(s)	198, 321
FokI	GGATG	2 cut(s)	65, 125
Fsp4HI	GCNGC	2 cut(s)	198, 321
FspBI	CTAG	2 cut(s)	203, 387
GlaI	GCGC	1 cut(s)	189
GluI	GCNGC	2 cut(s)	198, 321
GsuI	CTGGAG	1 cut(s)	356
HhaI	GCGC	1 cut(s)	190
Hin1II	CATG	1 cut(s)	44
Hin6I	GCGC	1 cut(s)	188
HinP1I	GCGC	1 cut(s)	188
HincII	GTYRAC	1 cut(s)	149
HindII	GTYRAC	1 cut(s)	149
HinfI	GANTC	3 cut(s)	281, 338, 344
Hpy166II	GTNNAC	1 cut(s)	149
Hpy188I	TCNGA	1 cut(s)	343
Hpy188III	TCNNGA	5 cut(s)	41, 80, 86, 158, 380
Hpy8I	GTNNAC	1 cut(s)	149
HpyAV	CCTTC	2 cut(s)	211, 215
HpyCH4IV	ACGT	1 cut(s)	357
HpyCH4V	TGCA	2 cut(s)	116, 395
HpyF10VI	GCNNNNNNNGC	2 cut(s)	113, 194
HpyF3I	CTNAG	1 cut(s)	108
HpySE526I	ACGT	1 cut(s)	357
Hsp92II	CATG	1 cut(s)	44
HspAI	GCGC	1 cut(s)	188
Ksp22I	TGATCA	1 cut(s)	82
Kzo9I	GATC	2 cut(s)	82, 160
LguI	GCTCTTC	1 cut(s)	259
LpnPI	CCDG	4 cut(s)	93, 171, 359, 386
Lsp1109I	GCAGC	2 cut(s)	184, 307
LweI	GCATC	2 cut(s)	34, 103
MaeI	CTAG	2 cut(s)	203, 387
MaeII	ACGT	1 cut(s)	357
MaeIII	GTNAC	2 cut(s)	64, 91
MalI	GATC	2 cut(s)	84, 162
MboI	GATC	2 cut(s)	82, 160
MboII	GAAGA	4 cut(s)	62, 257, 276, 341
MluCI	AATT	2 cut(s)	100, 180
MmeI	TCCRAC	1 cut(s)	391
MnlI	CCTC	1 cut(s)	103
Mph1103I	ATGCAT	1 cut(s)	397
MseI	TTAA	3 cut(s)	9, 99, 255
MspA1I	CMGCKG	1 cut(s)	107
MspR9I	CCNGG	1 cut(s)	374
MvaI	CCWGG	1 cut(s)	374
MwoI	GCNNNNNNNGC	2 cut(s)	113, 194
NdeII	GATC	2 cut(s)	82, 160
NlaIII	CATG	1 cut(s)	44
NlaIV	GGNNCC	1 cut(s)	27
NmuCI	GTSAC	1 cut(s)	64
NsiI	ATGCAT	1 cut(s)	397
PagI	TCATGA	1 cut(s)	40
PciSI	GCTCTTC	1 cut(s)	259
PfeI	GAWTC	3 cut(s)	281, 338, 344
PkrI	GCNGC	2 cut(s)	199, 322
Psp6I	CCWGG	1 cut(s)	372
PspGI	CCWGG	1 cut(s)	372
PspN4I	GGNNCC	1 cut(s)	27
PspPI	GGNCC	1 cut(s)	259
PvuII	CAGCTG	1 cut(s)	107
SapI	GCTCTTC	1 cut(s)	259
SaqAI	TTAA	3 cut(s)	9, 99, 255
SatI	GCNGC	2 cut(s)	198, 321
Sau3AI	GATC	2 cut(s)	82, 160
Sau96I	GGNCC	1 cut(s)	259
ScrFI	CCNGG	1 cut(s)	374
SetI	ASST	8 cut(s)	15, 78, 109, 271, 298, 360, 378, 388
SfaNI	GCATC	2 cut(s)	34, 103
SinI	GGWCC	1 cut(s)	259
Sse9I	AATT	2 cut(s)	100, 180
SspMI	CTAG	2 cut(s)	203, 387
StyD4I	CCNGG	1 cut(s)	372
TaiI	ACGT	1 cut(s)	360
TaqII	GACCGA	1 cut(s)	276
TasI	AATT	2 cut(s)	100, 180
TfiI	GAWTC	3 cut(s)	281, 338, 344
Tru1I	TTAA	3 cut(s)	9, 99, 255
Tru9I	TTAA	3 cut(s)	9, 99, 255
TseFI	GTSAC	1 cut(s)	64
TseI	GCWGC	2 cut(s)	197, 320
Tsp45I	GTSAC	1 cut(s)	64
VpaK11BI	GGWCC	1 cut(s)	259
XspI	CTAG	2 cut(s)	203, 387
Zsp2I	ATGCAT	1 cut(s)	397

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