Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0009738

Physical Location & Seq

Genomic Coordinates Reverse (-)

24869605 .. 24872880

Gene Structure 3276 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG221200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGTTCTTCTCACATAGAGAGAACACTGTGAGCACTCTAGGACGGCTGGTGCTGATTATATGGTTGTTTGTGGTGTTGATTATCAATTCGAGCTATACAGCTAGTTTGACATCGATTCTCACTGTACAACAGCTGACATCACAGATTGAGGGGATAGACAGCTTGATATCAAGTAATGATCCAATCGGAGTTCAAGATGGGTCATTTGCATGGAATTATTTGGTTAATGAGCTCAACATAGCGGAAGTTGTCAAAACAATGGTTGCCAAGGGATATGTTCTGGGACAAGATGCATTAATCAAGGGGATTTGTCAAAACAATGAGTCCTATCAAGTATCGGCTGCTACAACGTCCAAGGTTTATGAGTTAGCAATTGAATATGGGCTCATCAAGGCAAAGAAGCTTTTCAATCACCTCAATAGCTCAGAGTATGTAGGTCATGATACTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0004888 GO:0005215 GO:0005216 GO:0005261 GO:0005262 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0006810 GO:0006811 GO:0006812 GO:0006816 GO:0006950 GO:0007154 GO:0007165 GO:0008066 GO:0008150 GO:0008324 GO:0009266 GO:0009409 GO:0009507 GO:0009536 GO:0009605 GO:0009611 GO:0009612 GO:0009628 GO:0009719 GO:0009987 GO:0010033 GO:0010034 GO:0010243 GO:0015075 GO:0015085 GO:0015267 GO:0015276 GO:0015318 GO:0016020 GO:0019722 GO:0019932 GO:0022803 GO:0022834 GO:0022836 GO:0022838 GO:0022839 GO:0022857 GO:0022890 GO:0023052 GO:0030001 GO:0033554 GO:0034220 GO:0035556 GO:0038023 GO:0042221 GO:0043200 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0046677 GO:0046873 GO:0050789 GO:0050794 GO:0050896 GO:0051179 GO:0051234 GO:0051716 GO:0055085 GO:0060089 GO:0065007 GO:0070417 GO:0070588 GO:0070838 GO:0070887 GO:0071214 GO:0071229 GO:0071230 GO:0071236 GO:0071260 GO:0071310 GO:0071311 GO:0071417 GO:0071495 GO:0071496 GO:0071944 GO:0072511 GO:0098655 GO:0098660 GO:0098662 GO:0104004 GO:1901698 GO:1901699 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ANF_receptor Lig_chan SBP_bac_3

Protein Analysis

149

Amino Acids

16.45

Weight (kDa)

5.23

Isoelectric Point (pI)

24.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Lig_chan	PF00060	1 - 114	1.2e-17	Ligand-gated ion channel

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0009738)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr4g0392441
rosa_multiflora	Rmu_sc0004465.1_g000026 Rmu_sc0006576.1_g000023 Rmu_sc0007753.1_g000018
rosa_roxburghii	Rroxscaffold_1G00009700 Rroxscaffold_2G00130700 Rroxscaffold_4G00277550 Rroxscaffold_4G00309110 Rroxscaffold_4G00310040
rosa_samantha	Rh1DG085900 Rh1DG285100 Rh4AG080900 Rh4DG098600 Rh5BG267100 Rh5DG221200 Rh5DG273700 Rh5DG512300 Rh6AG030700 Rh6BG476200 Rh6CG512300 Rh6CG523800 Rh7AG262200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	242
AclWI	GGATC	1 cut(s)	173
AfaI	GTAC	1 cut(s)	126
AgsI	TTSAA	3 cut(s)	194, 377, 409
AluBI	AGCT	7 cut(s)	93, 101, 133, 162, 232, 403, 423
AluI	AGCT	7 cut(s)	93, 101, 133, 162, 232, 403, 423
Alw21I	GWGCWC	2 cut(s)	35, 234
AlwI	GGATC	1 cut(s)	173
ApeKI	GCWGC	1 cut(s)	341
AseI	ATTAAT	1 cut(s)	296
Asp700I	GAANNNNTTC	1 cut(s)	404
AsuHPI	GGTGA	1 cut(s)	404
BanII	GRGCYC	2 cut(s)	234, 387
Bbv12I	GWGCWC	2 cut(s)	35, 234
BbvI	GCAGC	1 cut(s)	328
BccI	CCATC	1 cut(s)	191
BceAI	ACGGC	1 cut(s)	59
BfaI	CTAG	2 cut(s)	38, 102
BisI	GCNGC	1 cut(s)	342
BlsI	GCNGC	1 cut(s)	343
BmsI	GCATC	1 cut(s)	280
Bsa29I	ATCGAT	1 cut(s)	113
BsaJI	CCNNGG	2 cut(s)	267, 354
BseCI	ATCGAT	1 cut(s)	113
BseDI	CCNNGG	2 cut(s)	267, 354
BseMII	CTCAG	1 cut(s)	438
BseXI	GCAGC	1 cut(s)	328
BshVI	ATCGAT	1 cut(s)	113
BsiHKAI	GWGCWC	2 cut(s)	35, 234
BslFI	GGGAC	1 cut(s)	297
BsmFI	GGGAC	1 cut(s)	297
Bsp1286I	GDGCHC	3 cut(s)	35, 234, 387
Bsp1407I	TGTACA	1 cut(s)	124
Bsp143I	GATC	1 cut(s)	178
BspACI	CCGC	1 cut(s)	242
BspCNI	CTCAG	1 cut(s)	437
BspDI	ATCGAT	1 cut(s)	113
BspHI	TCATGA	1 cut(s)	439
BspPI	GGATC	1 cut(s)	173
BsrGI	TGTACA	1 cut(s)	124
BssECI	CCNNGG	2 cut(s)	267, 354
BssMI	GATC	1 cut(s)	178
BssT1I	CCWWGG	2 cut(s)	267, 354
Bst4CI	ACNGT	2 cut(s)	28, 124
BstAUI	TGTACA	1 cut(s)	124
BstDEI	CTNAG	2 cut(s)	424, 447
BstKTI	GATC	1 cut(s)	181
BstMBI	GATC	1 cut(s)	178
BstV1I	GCAGC	1 cut(s)	328
Bsu15I	ATCGAT	1 cut(s)	113
BsuTUI	ATCGAT	1 cut(s)	113
BtsIMutI	CAGTG	2 cut(s)	24, 120
CciI	TCATGA	1 cut(s)	439
ClaI	ATCGAT	1 cut(s)	113
Csp6I	GTAC	1 cut(s)	125
CviAII	CATG	2 cut(s)	210, 440
CviQI	GTAC	1 cut(s)	125
DdeI	CTNAG	2 cut(s)	424, 447
DpnI	GATC	1 cut(s)	180
DpnII	GATC	1 cut(s)	178
Ecl136II	GAGCTC	1 cut(s)	232
Eco130I	CCWWGG	2 cut(s)	267, 354
Eco24I	GRGCYC	2 cut(s)	234, 387
Eco32I	GATATC	1 cut(s)	168
Eco53kI	GAGCTC	1 cut(s)	232
EcoICRI	GAGCTC	1 cut(s)	232
EcoRV	GATATC	1 cut(s)	168
EcoT14I	CCWWGG	2 cut(s)	267, 354
EcoT22I	ATGCAT	1 cut(s)	295
EcoT38I	GRGCYC	2 cut(s)	234, 387
ErhI	CCWWGG	2 cut(s)	267, 354
FaeI	CATG	2 cut(s)	213, 443
FaqI	GGGAC	1 cut(s)	297
FatI	CATG	2 cut(s)	209, 439
Fnu4HI	GCNGC	1 cut(s)	342
FriOI	GRGCYC	2 cut(s)	234, 387
Fsp4HI	GCNGC	1 cut(s)	342
FspBI	CTAG	2 cut(s)	38, 102
GluI	GCNGC	1 cut(s)	342
Hin1II	CATG	2 cut(s)	213, 443
HindIII	AAGCTT	1 cut(s)	401
HinfI	GANTC	2 cut(s)	115, 323
HphI	GGTGA	1 cut(s)	404
Hpy188I	TCNGA	2 cut(s)	188, 427
Hpy188III	TCNNGA	2 cut(s)	194, 440
HpyCH4III	ACNGT	2 cut(s)	28, 124
HpyCH4IV	ACGT	1 cut(s)	350
HpyCH4V	TGCA	2 cut(s)	209, 293
HpyF3I	CTNAG	2 cut(s)	424, 447
HpySE526I	ACGT	1 cut(s)	350
Hsp92II	CATG	2 cut(s)	213, 443
Kzo9I	GATC	1 cut(s)	178
LpnPI	CCDG	2 cut(s)	32, 266
Lsp1109I	GCAGC	1 cut(s)	328
LweI	GCATC	1 cut(s)	280
MaeI	CTAG	2 cut(s)	38, 102
MaeII	ACGT	1 cut(s)	350
MalI	GATC	1 cut(s)	180
MboI	GATC	1 cut(s)	178
MfeI	CAATTG	1 cut(s)	372
MhlI	GDGCHC	3 cut(s)	35, 234, 387
MluCI	AATT	3 cut(s)	85, 214, 372
MlyI	GAGTC	1 cut(s)	332
MnlI	CCTC	2 cut(s)	142, 425
Mph1103I	ATGCAT	1 cut(s)	295
MroXI	GAANNNNTTC	1 cut(s)	404
MseI	TTAA	2 cut(s)	225, 296
MslI	CAYNNNNRTG	1 cut(s)	208
MspA1I	CMGCKG	1 cut(s)	133
MunI	CAATTG	1 cut(s)	372
NdeII	GATC	1 cut(s)	178
NlaIII	CATG	2 cut(s)	213, 443
NsiI	ATGCAT	1 cut(s)	295
PagI	TCATGA	1 cut(s)	439
PdmI	GAANNNNTTC	1 cut(s)	404
PfeI	GAWTC	1 cut(s)	115
PkrI	GCNGC	1 cut(s)	343
PleI	GAGTC	1 cut(s)	331
PpsI	GAGTC	1 cut(s)	331
PshBI	ATTAAT	1 cut(s)	296
Psp124BI	GAGCTC	1 cut(s)	234
PvuII	CAGCTG	1 cut(s)	133
RsaI	GTAC	1 cut(s)	126
RsaNI	GTAC	1 cut(s)	125
RseI	CAYNNNNRTG	1 cut(s)	208
SacI	GAGCTC	1 cut(s)	234
SaqAI	TTAA	2 cut(s)	225, 296
SatI	GCNGC	1 cut(s)	342
Sau3AI	GATC	1 cut(s)	178
SchI	GAGTC	1 cut(s)	332
SduI	GDGCHC	3 cut(s)	35, 234, 387
SfaNI	GCATC	1 cut(s)	280
SmiMI	CAYNNNNRTG	1 cut(s)	208
Sse9I	AATT	3 cut(s)	85, 214, 372
SsiI	CCGC	1 cut(s)	242
SspMI	CTAG	2 cut(s)	38, 102
SstI	GAGCTC	1 cut(s)	234
StyI	CCWWGG	2 cut(s)	267, 354
TaaI	ACNGT	2 cut(s)	28, 124
TaiI	ACGT	1 cut(s)	353
TaqI	TCGA	2 cut(s)	89, 113
TasI	AATT	3 cut(s)	85, 214, 372
TatI	WGTACW	1 cut(s)	124
TfiI	GAWTC	1 cut(s)	115
Tru1I	TTAA	2 cut(s)	225, 296
Tru9I	TTAA	2 cut(s)	225, 296
TscAI	CASTG	2 cut(s)	31, 127
TseI	GCWGC	1 cut(s)	341
TspRI	CASTG	2 cut(s)	31, 127
VspI	ATTAAT	1 cut(s)	296
XmnI	GAANNNNTTC	1 cut(s)	404
XspI	CTAG	2 cut(s)	38, 102
Zsp2I	ATGCAT	1 cut(s)	295

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