Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0009738

Physical Location & Seq

Genomic Coordinates Reverse (-)

33452850 .. 33456085

Gene Structure 3236 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG273700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 750 bp

ATGCAGAACTTTGATGCAGCTGTTGGGGATGTTACAATAACTATGAATAGGACAAGAATGGTTGATTTTACACAGCCTTACATGGAATCAGGACTAGTTGTAGTTGTTCCTGTCAAACAGGTAAAATCAAACCCTTGGGCTTTCCTGAAGCCATTTACTATTGAGATGTGGTTAGTCACCGGTGCATGCTTCCTTTTTGTGGGAGTCGTTGTTTGGATTCTAGAGCACATGATTAATCACGAGTTCCGTGGTCCACCAAGGGAACAACTCATGACTATTTTTTGGTTTAGTTTCTCGACGATGTTCTTCTCACATAGAGAGAACACTGTGAGCACTCTAGGACGGCTGGTGCTGATTATATGGTTGTTTGTGGTGTTGATTATCAATTCGAGCTATACAGCTAGTTTGACATCGATCCTCACTGTACAACAGATGACATCACGGATTGAGGGGATAAACAGCTTAATATCAAGTAATGATCCAATCGGAGTTCAAGATGCGTCATTTGCATGGAATTATTTGGTTAATAAGCTAAACATAGCAGAAGTTGTCAAAACAATGGTTGCCAAGGGATATGTTCTGGGACAAGATGCATTAATCAAGGGGATTTGTCAAAACAATGAGTCCTATCAAGTATCGGCTGCTACAACGTCCAAGGTTTATGAGTTAGCAATTGAATATGGGCTCATCAAGGCAAAAAAACTTTTCAATCACCTCAATAGCTCAGAGTATGTAGGTCATGACACTTAG

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

249

Amino Acids

28.1

Weight (kDa)

6.51

Isoelectric Point (pI)

24.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Lig_chan-Glu_bd	PF10613	3 - 38	5.2e-07	Ligated ion channel L-glutamate- and glycine-binding site
Lig_chan	PF00060	54 - 213	3e-34	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)
AclWI	GGATC	2 cut(s)	409, 473
AcuI	CTGAAG	1 cut(s)	167
AfaI	GTAC	1 cut(s)	426
AfiI	CCNNNNNNNGG	1 cut(s)	199
AgeI	ACCGGT	1 cut(s)	179
AgsI	TTSAA	3 cut(s)	494, 677, 709
AhlI	ACTAGT	1 cut(s)	94
AluBI	AGCT	6 cut(s)	20, 393, 401, 462, 532, 723
AluI	AGCT	6 cut(s)	20, 393, 401, 462, 532, 723
Alw21I	GWGCWC	2 cut(s)	228, 335
AlwI	GGATC	2 cut(s)	409, 473
ApeKI	GCWGC	2 cut(s)	17, 641
AseI	ATTAAT	2 cut(s)	234, 596
AsiGI	ACCGGT	1 cut(s)	179
AspS9I	GGNCC	1 cut(s)	251
AsuHPI	GGTGA	2 cut(s)	169, 704
AvaII	GGWCC	1 cut(s)	251
BanII	GRGCYC	1 cut(s)	687
BauI	CACGAG	1 cut(s)	239
Bbv12I	GWGCWC	2 cut(s)	228, 335
BbvI	GCAGC	2 cut(s)	29, 628
BceAI	ACGGC	1 cut(s)	359
BcuI	ACTAGT	1 cut(s)	94
BfaI	CTAG	4 cut(s)	95, 221, 338, 402
BisI	GCNGC	2 cut(s)	18, 642
BlsI	GCNGC	2 cut(s)	19, 643
Bme18I	GGWCC	1 cut(s)	251
BmgT120I	GGNCC	1 cut(s)	251
BmsI	GCATC	3 cut(s)	4, 487, 580
Bsa29I	ATCGAT	1 cut(s)	413
BsaJI	CCNNGG	5 cut(s)	134, 247, 257, 567, 654
BsaWI	WCCGGW	1 cut(s)	179
BsaXI	ACNNNNNCTCC	2 cut(s)	195, 225
Bsc4I	CCNNNNNNNGG	1 cut(s)	199
Bse118I	RCCGGY	1 cut(s)	179
BseCI	ATCGAT	1 cut(s)	413
BseDI	CCNNGG	5 cut(s)	134, 247, 257, 567, 654
BseGI	GGATG	1 cut(s)	34
BseLI	CCNNNNNNNGG	1 cut(s)	199
BseMII	CTCAG	1 cut(s)	738
BseXI	GCAGC	2 cut(s)	29, 628
BshTI	ACCGGT	1 cut(s)	179
BshVI	ATCGAT	1 cut(s)	413
BsiHKAI	GWGCWC	2 cut(s)	228, 335
BsiSI	CCGG	1 cut(s)	180
BslFI	GGGAC	1 cut(s)	597
BslI	CCNNNNNNNGG	1 cut(s)	199
BsmFI	GGGAC	1 cut(s)	597
Bsp1286I	GDGCHC	3 cut(s)	228, 335, 687
Bsp1407I	TGTACA	1 cut(s)	424
Bsp143I	GATC	2 cut(s)	414, 478
BspCNI	CTCAG	1 cut(s)	737
BspDI	ATCGAT	1 cut(s)	413
BspHI	TCATGA	2 cut(s)	270, 739
BspPI	GGATC	2 cut(s)	409, 473
BsrFI	RCCGGY	1 cut(s)	179
BsrGI	TGTACA	1 cut(s)	424
BssAI	RCCGGY	1 cut(s)	179
BssECI	CCNNGG	5 cut(s)	134, 247, 257, 567, 654
BssMI	GATC	2 cut(s)	414, 478
BssSI	CACGAG	1 cut(s)	239
BssT1I	CCWWGG	4 cut(s)	134, 257, 567, 654
Bst2BI	CACGAG	1 cut(s)	239
Bst4CI	ACNGT	2 cut(s)	328, 424
BstAUI	TGTACA	1 cut(s)	424
BstC8I	GCNNGC	1 cut(s)	187
BstDEI	CTNAG	2 cut(s)	724, 747
BstDSI	CCRYGG	1 cut(s)	247
BstF5I	GGATG	1 cut(s)	34
BstKTI	GATC	2 cut(s)	417, 481
BstMBI	GATC	2 cut(s)	414, 478
BstMWI	GCNNNNNNNGC	1 cut(s)	506
BstNSI	RCATGY	1 cut(s)	189
BstV1I	GCAGC	2 cut(s)	29, 628
Bsu15I	ATCGAT	1 cut(s)	413
BsuTUI	ATCGAT	1 cut(s)	413
BtgI	CCRYGG	1 cut(s)	247
BtsCI	GGATG	1 cut(s)	34
BtsIMutI	CAGTG	2 cut(s)	324, 420
Cac8I	GCNNGC	1 cut(s)	187
CciI	TCATGA	2 cut(s)	270, 739
Cfr10I	RCCGGY	1 cut(s)	179
Cfr13I	GGNCC	1 cut(s)	251
ClaI	ATCGAT	1 cut(s)	413
CseI	GACGC	1 cut(s)	489
Csp6I	GTAC	1 cut(s)	425
CspAI	ACCGGT	1 cut(s)	179
CviAII	CATG	6 cut(s)	82, 186, 229, 271, 510, 740
CviQI	GTAC	1 cut(s)	425
DdeI	CTNAG	2 cut(s)	724, 747
DpnI	GATC	2 cut(s)	416, 480
DpnII	GATC	2 cut(s)	414, 478
Eco130I	CCWWGG	4 cut(s)	134, 257, 567, 654
Eco24I	GRGCYC	1 cut(s)	687
Eco47I	GGWCC	1 cut(s)	251
Eco57I	CTGAAG	1 cut(s)	167
EcoT14I	CCWWGG	4 cut(s)	134, 257, 567, 654
EcoT22I	ATGCAT	1 cut(s)	595
EcoT38I	GRGCYC	1 cut(s)	687
ErhI	CCWWGG	4 cut(s)	134, 257, 567, 654
FaeI	CATG	6 cut(s)	85, 189, 232, 274, 513, 743
FaqI	GGGAC	1 cut(s)	597
FatI	CATG	6 cut(s)	81, 185, 228, 270, 509, 739
Fnu4HI	GCNGC	2 cut(s)	18, 642
FokI	GGATG	1 cut(s)	41
FriOI	GRGCYC	1 cut(s)	687
Fsp4HI	GCNGC	2 cut(s)	18, 642
FspBI	CTAG	4 cut(s)	95, 221, 338, 402
GluI	GCNGC	2 cut(s)	18, 642
HapII	CCGG	1 cut(s)	180
HgaI	GACGC	1 cut(s)	489
Hin1II	CATG	6 cut(s)	85, 189, 232, 274, 513, 743
HinfI	GANTC	4 cut(s)	86, 204, 217, 623
HpaII	CCGG	1 cut(s)	180
HphI	GGTGA	2 cut(s)	169, 704
Hpy166II	GTNNAC	1 cut(s)	254
Hpy188I	TCNGA	2 cut(s)	488, 727
Hpy188III	TCNNGA	8 cut(s)	90, 145, 221, 239, 271, 295, 494, 740
Hpy8I	GTNNAC	1 cut(s)	254
Hpy99I	CGWCG	1 cut(s)	301
HpyCH4III	ACNGT	2 cut(s)	328, 424
HpyCH4IV	ACGT	1 cut(s)	650
HpyCH4V	TGCA	5 cut(s)	4, 17, 185, 509, 593
HpyF10VI	GCNNNNNNNGC	1 cut(s)	506
HpyF3I	CTNAG	2 cut(s)	724, 747
HpySE526I	ACGT	1 cut(s)	650
Hsp92II	CATG	6 cut(s)	85, 189, 232, 274, 513, 743
Kzo9I	GATC	2 cut(s)	414, 478
LpnPI	CCDG	7 cut(s)	75, 104, 123, 158, 193, 332, 566
Lsp1109I	GCAGC	2 cut(s)	29, 628
LweI	GCATC	3 cut(s)	4, 487, 580
MaeI	CTAG	4 cut(s)	95, 221, 338, 402
MaeII	ACGT	1 cut(s)	650
MaeIII	GTNAC	2 cut(s)	31, 175
MalI	GATC	2 cut(s)	416, 480
MboI	GATC	2 cut(s)	414, 478
MboII	GAAGA	1 cut(s)	298
MfeI	CAATTG	1 cut(s)	672
MhlI	GDGCHC	3 cut(s)	228, 335, 687
MluCI	AATT	3 cut(s)	385, 514, 672
MlyI	GAGTC	2 cut(s)	213, 632
MnlI	CCTC	3 cut(s)	428, 442, 725
Mph1103I	ATGCAT	1 cut(s)	595
MseI	TTAA	4 cut(s)	234, 464, 525, 596
MslI	CAYNNNNRTG	1 cut(s)	508
MspA1I	CMGCKG	1 cut(s)	20
MspI	CCGG	1 cut(s)	180
MunI	CAATTG	1 cut(s)	672
MwoI	GCNNNNNNNGC	1 cut(s)	506
NdeII	GATC	2 cut(s)	414, 478
NlaIII	CATG	6 cut(s)	85, 189, 232, 274, 513, 743
NmuCI	GTSAC	1 cut(s)	175
NsiI	ATGCAT	1 cut(s)	595
NspI	RCATGY	1 cut(s)	189
PaeI	GCATGC	1 cut(s)	189
PagI	TCATGA	2 cut(s)	270, 739
PfeI	GAWTC	2 cut(s)	86, 217
PinAI	ACCGGT	1 cut(s)	179
PkrI	GCNGC	2 cut(s)	19, 643
PleI	GAGTC	2 cut(s)	212, 631
PpsI	GAGTC	2 cut(s)	212, 631
PshBI	ATTAAT	2 cut(s)	234, 596
PspPI	GGNCC	1 cut(s)	251
PvuII	CAGCTG	1 cut(s)	20
RsaI	GTAC	1 cut(s)	426
RsaNI	GTAC	1 cut(s)	425
RseI	CAYNNNNRTG	1 cut(s)	508
SaqAI	TTAA	4 cut(s)	234, 464, 525, 596
SatI	GCNGC	2 cut(s)	18, 642
Sau3AI	GATC	2 cut(s)	414, 478
Sau96I	GGNCC	1 cut(s)	251
SchI	GAGTC	2 cut(s)	213, 632
SduI	GDGCHC	3 cut(s)	228, 335, 687
SfaNI	GCATC	3 cut(s)	4, 487, 580
SgrAI	CRCCGGYG	1 cut(s)	179
SinI	GGWCC	1 cut(s)	251
SmiMI	CAYNNNNRTG	1 cut(s)	508
SpeI	ACTAGT	1 cut(s)	94
SphI	GCATGC	1 cut(s)	189
Sse9I	AATT	3 cut(s)	385, 514, 672
SspMI	CTAG	4 cut(s)	95, 221, 338, 402
StyI	CCWWGG	4 cut(s)	134, 257, 567, 654
TaaI	ACNGT	2 cut(s)	328, 424
TaiI	ACGT	1 cut(s)	653
TaqI	TCGA	3 cut(s)	296, 389, 413
TasI	AATT	3 cut(s)	385, 514, 672
TatI	WGTACW	1 cut(s)	424
TfiI	GAWTC	2 cut(s)	86, 217
Tru1I	TTAA	4 cut(s)	234, 464, 525, 596
Tru9I	TTAA	4 cut(s)	234, 464, 525, 596
TscAI	CASTG	2 cut(s)	331, 427
TseFI	GTSAC	1 cut(s)	175
TseI	GCWGC	2 cut(s)	17, 641
Tsp45I	GTSAC	1 cut(s)	175
TspDTI	ATGAA	1 cut(s)	59
TspGWI	ACGGA	2 cut(s)	236, 457
TspRI	CASTG	2 cut(s)	331, 427
VpaK11BI	GGWCC	1 cut(s)	251
VspI	ATTAAT	2 cut(s)	234, 596
XbaI	TCTAGA	1 cut(s)	220
XceI	RCATGY	1 cut(s)	189
XspI	CTAG	4 cut(s)	95, 221, 338, 402
Zsp2I	ATGCAT	1 cut(s)	595

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