Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0005274

Physical Location & Seq

Genomic Coordinates Forward (+)

3334629 .. 3337942

Gene Structure 3314 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG047400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 372 bp

ATGCCCCGATATAGATACCCAACAATGACTAAAACTTATGAGAAGTTCAGGCTTCATGTGATGGAGATGGAGGGTGAGAATGGAACAGGGAAATCGACATTTATCCGCTTGCTGGCTGGTCTATTGAAACCTGATTCTGAGTCGACTGTGGAGATACCTGAGTTTAATGTATCTTACAAGCCCCAAAAAATTAGTCCCAAGTTTACGAGAACTGTCAGGGACTTGCTTCATATGAAAATTCGTGACTCGTATACTCATCCTCAGTTTGTATCGGATGTCATGAAATTGAGTGGGTTTGAAGCGACGTCGTTTTTGAAACGGATTGGGTTTAAAGCGTTGTCTCTTTCTAAAGGCAGCAAATTCGATCCGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000054 GO:0000166 GO:0003674 GO:0005215 GO:0005488 GO:0005506 GO:0005524 GO:0006403 GO:0006405 GO:0006412 GO:0006413 GO:0006415 GO:0006518 GO:0006611 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0008104 GO:0008144 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0015031 GO:0015833 GO:0015931 GO:0016043 GO:0017076 GO:0019538 GO:0022411 GO:0022613 GO:0030554 GO:0031503 GO:0032553 GO:0032555 GO:0032559 GO:0032984 GO:0033036 GO:0033750 GO:0034613 GO:0034641 GO:0034645 GO:0035639 GO:0036094 GO:0042254 GO:0042886 GO:0043021 GO:0043024 GO:0043043 GO:0043167 GO:0043168 GO:0043169 GO:0043170 GO:0043603 GO:0043604 GO:0043624 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044877 GO:0045184 GO:0046872 GO:0046907 GO:0046914 GO:0050657 GO:0050658 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051640 GO:0051641 GO:0051649 GO:0051656 GO:0070727 GO:0071166 GO:0071426 GO:0071428 GO:0071702 GO:0071704 GO:0071705 GO:0071840 GO:0097159 GO:0097367 GO:1901265 GO:1901363 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ABC_tran Fer4 RLI

Protein Analysis

123

Amino Acids

14.22

Weight (kDa)

9.8

Isoelectric Point (pI)

18.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ABC_tran	PF00005	21 - 75	4.6e-06	ABC transporter

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: OG0005274)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G19210
fragaria_vesca	FvH4_2g37360 FvH4_2g37360
malus_domestica	MD08G1001700.v1.1 MD09G1160100.v1.1 MD15G1001000.v1.1 MD17G1145900.v1.1
prunus_persica	Prupe.1G366500_v2.0.a1 Prupe.1G366500_v2.0.a1 Prupe.3G018600_v2.0.a1 Prupe.3G018600_v2.0.a1
pyrus_communis	pycom08g00110 pycom15g00040
rosa_chinensis	RchiOBHm_Chr5g0005021 RchiOBHm_Chr6g0304351 RchiOBHm_Chr6g0304361
rosa_laevigata	RLG00000010987
rosa_multiflora	Rmu_sc0010714.1_g000006 Rmu_sc0015928.1_g000008 Rmu_ssc0000218.1_g000041
rosa_roxburghii	Rroxscaffold_7G00163810
rosa_rugosa	Rorug06G0330700
rosa_samantha	Rh5AG042900 Rh5CG047400 Rh6AG443700 Rh6BG458700 Rh6CG456500 Rh6DG443200
rosa_wichuraiana	Rw6G038510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	308
AccI	GTMKAC	2 cut(s)	143, 251
AciI	CCGC	1 cut(s)	106
AclWI	GGATC	1 cut(s)	359
AcsI	RAATTY	2 cut(s)	237, 359
AcyI	GRCGYC	1 cut(s)	305
AfiI	CCNNNNNNNGG	1 cut(s)	112
AgsI	TTSAA	3 cut(s)	127, 299, 316
Alw26I	GTCTC	1 cut(s)	345
AlwI	GGATC	1 cut(s)	359
ApeKI	GCWGC	1 cut(s)	354
ApoI	RAATTY	2 cut(s)	237, 359
ArsI	GACNNNNNNTTYG	4 cut(s)	178, 210, 295, 327
AsuHPI	GGTGA	1 cut(s)	86
BaeI	ACNNNNGTAYC	2 cut(s)	146, 179
BbvI	GCAGC	1 cut(s)	366
BccI	CCATC	2 cut(s)	55, 61
BcgI	CGANNNNNNTGC	1 cut(s)	343
BcoDI	GTCTC	1 cut(s)	345
BisI	GCNGC	1 cut(s)	355
BlsI	GCNGC	1 cut(s)	356
BsaHI	GRCGYC	1 cut(s)	305
Bsc4I	CCNNNNNNNGG	1 cut(s)	112
BseGI	GGATG	2 cut(s)	256, 280
BseLI	CCNNNNNNNGG	1 cut(s)	112
BseMII	CTCAG	3 cut(s)	129, 150, 275
BseXI	GCAGC	1 cut(s)	366
BslFI	GGGAC	2 cut(s)	180, 233
BslI	CCNNNNNNNGG	1 cut(s)	112
BsmAI	GTCTC	1 cut(s)	345
BsmFI	GGGAC	2 cut(s)	180, 233
Bsp143I	GATC	1 cut(s)	364
BspACI	CCGC	1 cut(s)	106
BspCNI	CTCAG	3 cut(s)	130, 151, 274
BspHI	TCATGA	1 cut(s)	279
BspPI	GGATC	1 cut(s)	359
BssMI	GATC	1 cut(s)	364
BssNAI	GTATAC	1 cut(s)	252
BssNI	GRCGYC	1 cut(s)	305
Bst1107I	GTATAC	1 cut(s)	252
Bst4CI	ACNGT	2 cut(s)	148, 214
BstACI	GRCGYC	1 cut(s)	305
BstC8I	GCNNGC	2 cut(s)	110, 114
BstDEI	CTNAG	3 cut(s)	138, 159, 261
BstF5I	GGATG	2 cut(s)	256, 280
BstKTI	GATC	1 cut(s)	367
BstMAI	GTCTC	1 cut(s)	345
BstMBI	GATC	1 cut(s)	364
BstV1I	GCAGC	1 cut(s)	366
BstZ17I	GTATAC	1 cut(s)	252
BtsCI	GGATG	2 cut(s)	256, 280
Cac8I	GCNNGC	2 cut(s)	110, 114
CciI	TCATGA	1 cut(s)	279
CviAII	CATG	2 cut(s)	56, 280
CviJI	RGCY	3 cut(s)	52, 116, 181
CviKI_1	RGCY	3 cut(s)	52, 116, 181
DdeI	CTNAG	3 cut(s)	138, 159, 261
DpnI	GATC	1 cut(s)	366
DpnII	GATC	1 cut(s)	364
DraI	TTTAAA	1 cut(s)	331
FaeI	CATG	2 cut(s)	59, 283
FaiI	YATR	7 cut(s)	12, 39, 57, 231, 233, 252, 281
FaqI	GGGAC	2 cut(s)	180, 233
FatI	CATG	2 cut(s)	55, 279
FauNDI	CATATG	1 cut(s)	231
FblI	GTMKAC	2 cut(s)	143, 251
Fnu4HI	GCNGC	1 cut(s)	355
FokI	GGATG	2 cut(s)	243, 287
Fsp4HI	GCNGC	1 cut(s)	355
GluI	GCNGC	1 cut(s)	355
Hin1I	GRCGYC	1 cut(s)	305
Hin1II	CATG	2 cut(s)	59, 283
HincII	GTYRAC	1 cut(s)	144
HindII	GTYRAC	1 cut(s)	144
HinfI	GANTC	3 cut(s)	134, 140, 245
HphI	GGTGA	1 cut(s)	86
Hpy166II	GTNNAC	3 cut(s)	144, 204, 252
Hpy188I	TCNGA	2 cut(s)	139, 274
Hpy188III	TCNNGA	2 cut(s)	242, 280
Hpy8I	GTNNAC	3 cut(s)	144, 204, 252
Hpy99I	CGWCG	2 cut(s)	307, 310
HpyCH4III	ACNGT	2 cut(s)	148, 214
HpyCH4IV	ACGT	1 cut(s)	305
HpyF3I	CTNAG	3 cut(s)	138, 159, 261
HpySE526I	ACGT	1 cut(s)	305
Hsp92I	GRCGYC	1 cut(s)	305
Hsp92II	CATG	2 cut(s)	59, 283
Kzo9I	GATC	1 cut(s)	364
LpnPI	CCDG	7 cut(s)	34, 72, 98, 102, 144, 171, 202
Lsp1109I	GCAGC	1 cut(s)	366
MaeII	ACGT	1 cut(s)	305
MaeIII	GTNAC	1 cut(s)	242
MalI	GATC	1 cut(s)	366
MboI	GATC	1 cut(s)	364
MluCI	AATT	4 cut(s)	189, 237, 284, 359
MlyI	GAGTC	2 cut(s)	149, 239
MnlI	CCTC	2 cut(s)	64, 270
MseI	TTAA	2 cut(s)	165, 330
NdeI	CATATG	1 cut(s)	231
NdeII	GATC	1 cut(s)	364
NlaIII	CATG	2 cut(s)	59, 283
NmuCI	GTSAC	1 cut(s)	242
PagI	TCATGA	1 cut(s)	279
PfeI	GAWTC	1 cut(s)	134
PkrI	GCNGC	1 cut(s)	356
PleI	GAGTC	2 cut(s)	148, 239
PpsI	GAGTC	2 cut(s)	148, 239
SalI	GTCGAC	1 cut(s)	142
SaqAI	TTAA	2 cut(s)	165, 330
SatI	GCNGC	1 cut(s)	355
Sau3AI	GATC	1 cut(s)	364
SchI	GAGTC	2 cut(s)	149, 239
SetI	ASST	3 cut(s)	133, 160, 308
Sse9I	AATT	4 cut(s)	189, 237, 284, 359
SsiI	CCGC	1 cut(s)	106
TaaI	ACNGT	2 cut(s)	148, 214
TaiI	ACGT	1 cut(s)	308
TaqI	TCGA	3 cut(s)	95, 143, 363
TasI	AATT	4 cut(s)	189, 237, 284, 359
TfiI	GAWTC	1 cut(s)	134
Tru1I	TTAA	2 cut(s)	165, 330
Tru9I	TTAA	2 cut(s)	165, 330
TseFI	GTSAC	1 cut(s)	242
TseI	GCWGC	1 cut(s)	354
Tsp45I	GTSAC	1 cut(s)	242
TspDTI	ATGAA	4 cut(s)	44, 218, 248, 296
TspGWI	ACGGA	2 cut(s)	334, 357
XapI	RAATTY	2 cut(s)	237, 359
XmiI	GTMKAC	2 cut(s)	143, 251
ZraI	GACGTC	1 cut(s)	306

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