Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0017748

Physical Location & Seq

Genomic Coordinates Forward (+)

49195019 .. 49213340

Gene Structure 18322 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG366200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 420 bp

ATGGATACTCTCGGTTTGAAGAGTAATTGCTTCTTTGAATCCTCTTGTGGCTGGAGGATAGATATGGGTCTCGAACTAACCAGTCACATACAAGCCAAAGAGGTGGCACCTGGAACTGTCACTGATGTCAAGAAAGCTTGTGCATGGCTTGGATATACAGACCTTTTTATAAGGATGAGGCTCAACCCTTTGGCATACGGTTATGGCAGATCCTTCCTTGAGTTTAAAGCAGAGATCTCTATAGCAGATGCTGCGCGTGCCCTTGACAAAGCAAAAATGATGCGGTTTGACGAGAATAGTGGCAATTTTTATTGTATAGAGCTTGGTCGCATAGCAAGCCACTTTTATATTCAACACTCTAGTGTTGAAACCTACAATGAAATGTTGAAGCCTCACATGAATGAGACCGAGAATCCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C Sec63

Protein Analysis

139

Amino Acids

15.82

Weight (kDa)

5.78

Isoelectric Point (pI)

28.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_SNRNP200	PF23445	26 - 67	6e-06	Winged Helix-turn-helix domain
Sec63	PF02889	106 - 136	2.7e-08	Sec63 Brl 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)

Image

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Orthologous Genes (Group: OG0017748)

Species	Orthologous Gene IDs
prunus_persica	Prupe.3G238700_v2.0.a1 Prupe.6G357800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0335081 RchiOBHm_Chr7g0224331
rosa_laevigata	RLG00000022526
rosa_multiflora	Rmu_sc0040399.1_g000001
rosa_rugosa	Rorug05G0380500 Rorug06G0022000 Rorug07G0325000
rosa_samantha	Rh3CG362000 Rh3DG364900 Rh7DG366200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	170
AccB1I	GGYRCC	1 cut(s)	106
AccII	CGCG	1 cut(s)	256
AciI	CCGC	1 cut(s)	283
AclWI	GGATC	1 cut(s)	204
AgsI	TTSAA	5 cut(s)	19, 38, 353, 368, 388
AjnI	CCWGG	1 cut(s)	109
AleI	CACNNNNGTG	1 cut(s)	360
AluBI	AGCT	2 cut(s)	137, 322
AluI	AGCT	2 cut(s)	137, 322
Alw26I	GTCTC	2 cut(s)	74, 398
AlwI	GGATC	1 cut(s)	204
AlwNI	CAGNNNCTG	1 cut(s)	251
ApeKI	GCWGC	1 cut(s)	251
AspLEI	GCGC	1 cut(s)	256
BaeGI	GKGCMC	1 cut(s)	262
BanI	GGYRCC	1 cut(s)	106
BbvI	GCAGC	1 cut(s)	238
BciT130I	CCWGG	1 cut(s)	111
BcoDI	GTCTC	2 cut(s)	74, 398
BfaI	CTAG	1 cut(s)	360
BfmI	CTRYAG	1 cut(s)	240
BglII	AGATCT	1 cut(s)	234
BisI	GCNGC	1 cut(s)	252
BlsI	GCNGC	1 cut(s)	253
Bme1390I	CCNGG	1 cut(s)	111
BmiI	GGNNCC	1 cut(s)	108
BmrFI	CCNGG	1 cut(s)	111
BmsI	GCATC	2 cut(s)	238, 270
BpmI	CTGGAG	1 cut(s)	73
BpuEI	CTTGAG	1 cut(s)	239
BsaI	GGTCTC	2 cut(s)	74, 398
Bse1I	ACTGG	1 cut(s)	81
BseBI	CCWGG	1 cut(s)	111
BseGI	GGATG	1 cut(s)	180
BseNI	ACTGG	1 cut(s)	81
BseSI	GKGCMC	1 cut(s)	262
BseXI	GCAGC	1 cut(s)	238
Bsh1236I	CGCG	1 cut(s)	256
BshNI	GGYRCC	1 cut(s)	106
BsmAI	GTCTC	2 cut(s)	74, 398
Bso31I	GGTCTC	2 cut(s)	74, 398
Bsp1286I	GDGCHC	1 cut(s)	262
Bsp143I	GATC	2 cut(s)	209, 234
BspACI	CCGC	1 cut(s)	283
BspFNI	CGCG	1 cut(s)	256
BspLI	GGNNCC	1 cut(s)	108
BspPI	GGATC	1 cut(s)	204
BspT107I	GGYRCC	1 cut(s)	106
BspTNI	GGTCTC	2 cut(s)	74, 398
BsrI	ACTGG	1 cut(s)	81
BssMI	GATC	2 cut(s)	209, 234
Bst2UI	CCWGG	1 cut(s)	111
Bst4CI	ACNGT	2 cut(s)	118, 200
Bst6I	CTCTTC	1 cut(s)	14
BstAPI	GCANNNNNTGC	1 cut(s)	251
BstC8I	GCNNGC	2 cut(s)	258, 337
BstDEI	CTNAG	1 cut(s)	417
BstF5I	GGATG	1 cut(s)	180
BstFNI	CGCG	1 cut(s)	256
BstHHI	GCGC	1 cut(s)	256
BstKTI	GATC	2 cut(s)	212, 237
BstMAI	GTCTC	2 cut(s)	74, 398
BstMBI	GATC	2 cut(s)	209, 234
BstMWI	GCNNNNNNNGC	3 cut(s)	251, 257, 336
BstNI	CCWGG	1 cut(s)	111
BstSCI	CCNGG	1 cut(s)	109
BstSFI	CTRYAG	1 cut(s)	240
BstSLI	GKGCMC	1 cut(s)	262
BstUI	CGCG	1 cut(s)	256
BstV1I	GCAGC	1 cut(s)	238
BstX2I	RGATCY	2 cut(s)	209, 234
BstXI	CCANNNNNNTGG	1 cut(s)	103
BstYI	RGATCY	2 cut(s)	209, 234
BtsCI	GGATG	1 cut(s)	180
BtsIMutI	CAGTG	1 cut(s)	120
Cac8I	GCNNGC	2 cut(s)	258, 337
CaiI	CAGNNNCTG	1 cut(s)	251
CfoI	GCGC	1 cut(s)	256
CviAII	CATG	2 cut(s)	144, 397
CviJI	RGCY	8 cut(s)	51, 95, 137, 148, 181, 322, 339, 391
CviKI_1	RGCY	8 cut(s)	51, 95, 137, 148, 181, 322, 339, 391
DdeI	CTNAG	1 cut(s)	417
DpnI	GATC	2 cut(s)	211, 236
DpnII	GATC	2 cut(s)	209, 234
DraI	TTTAAA	1 cut(s)	226
Eam1104I	CTCTTC	1 cut(s)	14
EarI	CTCTTC	1 cut(s)	14
Eco31I	GGTCTC	2 cut(s)	74, 398
EcoRII	CCWGG	1 cut(s)	109
FaeI	CATG	2 cut(s)	147, 400
FatI	CATG	2 cut(s)	143, 396
Fnu4HI	GCNGC	1 cut(s)	252
FokI	GGATG	1 cut(s)	187
Fsp4HI	GCNGC	1 cut(s)	252
FspBI	CTAG	1 cut(s)	360
GlaI	GCGC	1 cut(s)	255
GluI	GCNGC	1 cut(s)	252
GsuI	CTGGAG	1 cut(s)	73
HhaI	GCGC	1 cut(s)	256
Hin1II	CATG	2 cut(s)	147, 400
Hin6I	GCGC	1 cut(s)	254
HinP1I	GCGC	1 cut(s)	254
HindIII	AAGCTT	1 cut(s)	135
HinfI	GANTC	2 cut(s)	38, 412
Hpy188III	TCNNGA	2 cut(s)	71, 130
HpyAV	CCTTC	1 cut(s)	223
HpyCH4III	ACNGT	2 cut(s)	118, 200
HpyCH4V	TGCA	1 cut(s)	143
HpyF10VI	GCNNNNNNNGC	3 cut(s)	251, 257, 336
HpyF3I	CTNAG	1 cut(s)	417
Hsp92II	CATG	2 cut(s)	147, 400
HspAI	GCGC	1 cut(s)	254
Kzo9I	GATC	2 cut(s)	209, 234
LpnPI	CCDG	4 cut(s)	37, 94, 96, 123
Lsp1109I	GCAGC	1 cut(s)	238
LweI	GCATC	2 cut(s)	238, 270
MaeI	CTAG	1 cut(s)	360
MaeIII	GTNAC	2 cut(s)	83, 118
MalI	GATC	2 cut(s)	211, 236
MboI	GATC	2 cut(s)	209, 234
MboII	GAAGA	1 cut(s)	31
MflI	RGATCY	2 cut(s)	209, 234
MhlI	GDGCHC	1 cut(s)	262
MluCI	AATT	2 cut(s)	25, 304
MnlI	CCTC	5 cut(s)	48, 52, 94, 171, 402
MseI	TTAA	1 cut(s)	225
MslI	CAYNNNNRTG	2 cut(s)	360, 399
MspR9I	CCNGG	1 cut(s)	111
MvaI	CCWGG	1 cut(s)	111
MvnI	CGCG	1 cut(s)	256
MwoI	GCNNNNNNNGC	3 cut(s)	251, 257, 336
NdeII	GATC	2 cut(s)	209, 234
NlaIII	CATG	2 cut(s)	147, 400
NlaIV	GGNNCC	1 cut(s)	108
NmuCI	GTSAC	2 cut(s)	83, 118
OliI	CACNNNNGTG	1 cut(s)	360
PfeI	GAWTC	2 cut(s)	38, 412
PkrI	GCNGC	1 cut(s)	253
PsiI	TTATAA	1 cut(s)	170
Psp6I	CCWGG	1 cut(s)	109
PspGI	CCWGG	1 cut(s)	109
PspN4I	GGNNCC	1 cut(s)	108
PstNI	CAGNNNCTG	1 cut(s)	251
PsuI	RGATCY	2 cut(s)	209, 234
RseI	CAYNNNNRTG	2 cut(s)	360, 399
SaqAI	TTAA	1 cut(s)	225
SatI	GCNGC	1 cut(s)	252
Sau3AI	GATC	2 cut(s)	209, 234
ScrFI	CCNGG	1 cut(s)	111
SduI	GDGCHC	1 cut(s)	262
SetI	ASST	6 cut(s)	105, 112, 139, 165, 324, 374
SfaNI	GCATC	2 cut(s)	238, 270
SfcI	CTRYAG	1 cut(s)	240
SmiMI	CAYNNNNRTG	2 cut(s)	360, 399
SmlI	CTYRAG	1 cut(s)	218
SmoI	CTYRAG	1 cut(s)	218
Sse9I	AATT	2 cut(s)	25, 304
SsiI	CCGC	1 cut(s)	283
SspMI	CTAG	1 cut(s)	360
StyD4I	CCNGG	1 cut(s)	109
TaaI	ACNGT	2 cut(s)	118, 200
TaqI	TCGA	1 cut(s)	72
TasI	AATT	2 cut(s)	25, 304
TfiI	GAWTC	2 cut(s)	38, 412
Tru1I	TTAA	1 cut(s)	225
Tru9I	TTAA	1 cut(s)	225
TscAI	CASTG	1 cut(s)	127
TseFI	GTSAC	2 cut(s)	83, 118
TseI	GCWGC	1 cut(s)	251
Tsp45I	GTSAC	2 cut(s)	83, 118
TspDTI	ATGAA	2 cut(s)	393, 413
TspRI	CASTG	1 cut(s)	127
XspI	CTAG	1 cut(s)	360

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