Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0009738

Physical Location & Seq

Genomic Coordinates Reverse (-)

30756220 .. 30757422

Gene Structure 1203 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00309110.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGCTCAATTCCTTTTTGCAGAACTTTGATGCAGCTGTTGGGGATGTTACAATAACTACGAATAGGACAAGAATGGTTGATTTTACACAGCCTTACATGGAATCAGGACTAGTTGTAGTTGTTCCTGTCAAACAGGTAAAATCAAACCCTTGGGCTTTTCTGAAGCCATTTACTATTGAGTTGTGGTTAGTCACCGGTGCATTCTTACTTTTTGTGGGAGTCGTTGTTTGGATTCTAGAGCATAGGATTAATCACGAGTTCCGTGGTCCACCAAGGGAACAGCTCATGACTATTTTTTGGTTTAGTTTTTCAACGATGTTCTTCTCACATAGAGAGAACACTGTGAGCACTCTAGGATTGCTGGTGCTGATTATATGGTTGTTTGTGGTGTTGATTATCAATTCGAGCTATACAGCTAGTTTGATATCGATCCTCACTGTACAACAGCTGACATCACAGATTGAGGGGATAGACAGCTTGATATCAAGTAATGATCCAATCGGAGTTCAAGATGGGTCATTTGCATGGAATTATTTGGTTAATGAGCTCAACATAGCGGAAGTTGTCAAAACAATGGTTGCCAAGGGATATGTTCTAGGACAAGATGCATTAATCAAGGGGATTTGTCAAAACAATGAGTCCTATCAAGTATCAGCTGCTACAACGTCCAAGGTTTATGAGTTAGCAATTGAATATGGGCTCATCAAGGCAAAGAAGCTTTTCAATCACCTCAATAGCTCAGAGTATGTAGGTCATGATACTTAG

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

254

Amino Acids

28.57

Weight (kDa)

5.51

Isoelectric Point (pI)

24.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Lig_chan-Glu_bd	PF10613	7 - 43	3.8e-07	Ligated ion channel L-glutamate- and glycine-binding site
Lig_chan	PF00060	59 - 218	2.2e-31	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)
AciI	CCGC	1 cut(s)	557
AclWI	GGATC	2 cut(s)	424, 488
AcuI	CTGAAG	1 cut(s)	182
AfaI	GTAC	1 cut(s)	441
AgeI	ACCGGT	1 cut(s)	194
AgsI	TTSAA	4 cut(s)	312, 509, 692, 724
AhlI	ACTAGT	1 cut(s)	109
Alw21I	GWGCWC	2 cut(s)	350, 549
AlwI	GGATC	2 cut(s)	424, 488
ApeKI	GCWGC	2 cut(s)	32, 656
AseI	ATTAAT	2 cut(s)	249, 611
AsiGI	ACCGGT	1 cut(s)	194
Asp700I	GAANNNNTTC	1 cut(s)	719
AspS9I	GGNCC	1 cut(s)	266
AsuHPI	GGTGA	2 cut(s)	184, 719
AvaII	GGWCC	1 cut(s)	266
BanII	GRGCYC	2 cut(s)	549, 702
BauI	CACGAG	1 cut(s)	254
Bbv12I	GWGCWC	2 cut(s)	350, 549
BbvI	GCAGC	2 cut(s)	44, 643
BccI	CCATC	1 cut(s)	506
BcuI	ACTAGT	1 cut(s)	109
BfaI	CTAG	5 cut(s)	110, 236, 353, 417, 596
BisI	GCNGC	2 cut(s)	33, 657
BlsI	GCNGC	2 cut(s)	34, 658
Bme18I	GGWCC	1 cut(s)	266
BmgT120I	GGNCC	1 cut(s)	266
BmsI	GCATC	2 cut(s)	19, 595
Bsa29I	ATCGAT	1 cut(s)	428
BsaBI	GATNNNNATC	1 cut(s)	428
BsaJI	CCNNGG	5 cut(s)	149, 262, 272, 582, 669
BsaWI	WCCGGW	1 cut(s)	194
BsaXI	ACNNNNNCTCC	2 cut(s)	210, 240
Bse118I	RCCGGY	1 cut(s)	194
Bse8I	GATNNNNATC	1 cut(s)	428
BseCI	ATCGAT	1 cut(s)	428
BseDI	CCNNGG	5 cut(s)	149, 262, 272, 582, 669
BseGI	GGATG	1 cut(s)	49
BseJI	GATNNNNATC	1 cut(s)	428
BseMII	CTCAG	1 cut(s)	753
BseXI	GCAGC	2 cut(s)	44, 643
BshTI	ACCGGT	1 cut(s)	194
BshVI	ATCGAT	1 cut(s)	428
BsiHKAI	GWGCWC	2 cut(s)	350, 549
BsiSI	CCGG	1 cut(s)	195
BsmI	GAATGC	1 cut(s)	200
Bsp1286I	GDGCHC	3 cut(s)	350, 549, 702
Bsp1407I	TGTACA	1 cut(s)	439
Bsp143I	GATC	2 cut(s)	429, 493
BspACI	CCGC	1 cut(s)	557
BspCNI	CTCAG	1 cut(s)	752
BspDI	ATCGAT	1 cut(s)	428
BspHI	TCATGA	2 cut(s)	285, 754
BspPI	GGATC	2 cut(s)	424, 488
BsrFI	RCCGGY	1 cut(s)	194
BsrGI	TGTACA	1 cut(s)	439
BssAI	RCCGGY	1 cut(s)	194
BssECI	CCNNGG	5 cut(s)	149, 262, 272, 582, 669
BssMI	GATC	2 cut(s)	429, 493
BssSI	CACGAG	1 cut(s)	254
BssT1I	CCWWGG	4 cut(s)	149, 272, 582, 669
Bst2BI	CACGAG	1 cut(s)	254
Bst4CI	ACNGT	2 cut(s)	343, 439
BstAUI	TGTACA	1 cut(s)	439
BstDEI	CTNAG	2 cut(s)	739, 762
BstDSI	CCRYGG	1 cut(s)	262
BstF5I	GGATG	1 cut(s)	49
BstKTI	GATC	2 cut(s)	432, 496
BstMBI	GATC	2 cut(s)	429, 493
BstV1I	GCAGC	2 cut(s)	44, 643
Bsu15I	ATCGAT	1 cut(s)	428
BsuTUI	ATCGAT	1 cut(s)	428
BtgI	CCRYGG	1 cut(s)	262
BtsCI	GGATG	1 cut(s)	49
BtsIMutI	CAGTG	2 cut(s)	339, 435
CciI	TCATGA	2 cut(s)	285, 754
Cfr10I	RCCGGY	1 cut(s)	194
Cfr13I	GGNCC	1 cut(s)	266
ClaI	ATCGAT	1 cut(s)	428
Csp6I	GTAC	1 cut(s)	440
CspAI	ACCGGT	1 cut(s)	194
CviAII	CATG	4 cut(s)	97, 286, 525, 755
CviQI	GTAC	1 cut(s)	440
DdeI	CTNAG	2 cut(s)	739, 762
DpnI	GATC	2 cut(s)	431, 495
DpnII	GATC	2 cut(s)	429, 493
Ecl136II	GAGCTC	1 cut(s)	547
Eco130I	CCWWGG	4 cut(s)	149, 272, 582, 669
Eco24I	GRGCYC	2 cut(s)	549, 702
Eco32I	GATATC	2 cut(s)	426, 483
Eco47I	GGWCC	1 cut(s)	266
Eco53kI	GAGCTC	1 cut(s)	547
Eco57I	CTGAAG	1 cut(s)	182
EcoICRI	GAGCTC	1 cut(s)	547
EcoRV	GATATC	2 cut(s)	426, 483
EcoT14I	CCWWGG	4 cut(s)	149, 272, 582, 669
EcoT22I	ATGCAT	1 cut(s)	610
EcoT38I	GRGCYC	2 cut(s)	549, 702
ErhI	CCWWGG	4 cut(s)	149, 272, 582, 669
FaeI	CATG	4 cut(s)	100, 289, 528, 758
FatI	CATG	4 cut(s)	96, 285, 524, 754
Fnu4HI	GCNGC	2 cut(s)	33, 657
FokI	GGATG	1 cut(s)	56
FriOI	GRGCYC	2 cut(s)	549, 702
Fsp4HI	GCNGC	2 cut(s)	33, 657
FspBI	CTAG	5 cut(s)	110, 236, 353, 417, 596
GluI	GCNGC	2 cut(s)	33, 657
HapII	CCGG	1 cut(s)	195
Hin1II	CATG	4 cut(s)	100, 289, 528, 758
HindIII	AAGCTT	1 cut(s)	716
HinfI	GANTC	4 cut(s)	101, 219, 232, 638
HpaII	CCGG	1 cut(s)	195
HphI	GGTGA	2 cut(s)	184, 719
Hpy166II	GTNNAC	1 cut(s)	269
Hpy188I	TCNGA	3 cut(s)	162, 503, 742
Hpy188III	TCNNGA	6 cut(s)	105, 236, 254, 286, 509, 755
Hpy8I	GTNNAC	1 cut(s)	269
HpyCH4III	ACNGT	2 cut(s)	343, 439
HpyCH4IV	ACGT	1 cut(s)	665
HpyCH4V	TGCA	5 cut(s)	19, 32, 200, 524, 608
HpyF3I	CTNAG	2 cut(s)	739, 762
HpySE526I	ACGT	1 cut(s)	665
Hsp92II	CATG	4 cut(s)	100, 289, 528, 758
Kzo9I	GATC	2 cut(s)	429, 493
LpnPI	CCDG	5 cut(s)	90, 119, 138, 208, 347
Lsp1109I	GCAGC	2 cut(s)	44, 643
LweI	GCATC	2 cut(s)	19, 595
MaeI	CTAG	5 cut(s)	110, 236, 353, 417, 596
MaeII	ACGT	1 cut(s)	665
MaeIII	GTNAC	2 cut(s)	46, 190
MalI	GATC	2 cut(s)	431, 495
MboI	GATC	2 cut(s)	429, 493
MboII	GAAGA	1 cut(s)	313
MfeI	CAATTG	1 cut(s)	687
MhlI	GDGCHC	3 cut(s)	350, 549, 702
MluCI	AATT	4 cut(s)	7, 400, 529, 687
MlyI	GAGTC	2 cut(s)	228, 647
MnlI	CCTC	3 cut(s)	443, 457, 740
Mph1103I	ATGCAT	1 cut(s)	610
MroXI	GAANNNNTTC	1 cut(s)	719
MseI	TTAA	3 cut(s)	249, 540, 611
MslI	CAYNNNNRTG	1 cut(s)	523
MspA1I	CMGCKG	3 cut(s)	35, 448, 656
MspI	CCGG	1 cut(s)	195
MunI	CAATTG	1 cut(s)	687
Mva1269I	GAATGC	1 cut(s)	200
NdeII	GATC	2 cut(s)	429, 493
NlaIII	CATG	4 cut(s)	100, 289, 528, 758
NmuCI	GTSAC	1 cut(s)	190
NsiI	ATGCAT	1 cut(s)	610
PagI	TCATGA	2 cut(s)	285, 754
PctI	GAATGC	1 cut(s)	200
PdmI	GAANNNNTTC	1 cut(s)	719
PfeI	GAWTC	2 cut(s)	101, 232
PinAI	ACCGGT	1 cut(s)	194
PkrI	GCNGC	2 cut(s)	34, 658
PleI	GAGTC	2 cut(s)	227, 646
PpsI	GAGTC	2 cut(s)	227, 646
PshBI	ATTAAT	2 cut(s)	249, 611
Psp124BI	GAGCTC	1 cut(s)	549
PspPI	GGNCC	1 cut(s)	266
PvuII	CAGCTG	3 cut(s)	35, 448, 656
RsaI	GTAC	1 cut(s)	441
RsaNI	GTAC	1 cut(s)	440
RseI	CAYNNNNRTG	1 cut(s)	523
SacI	GAGCTC	1 cut(s)	549
SaqAI	TTAA	3 cut(s)	249, 540, 611
SatI	GCNGC	2 cut(s)	33, 657
Sau3AI	GATC	2 cut(s)	429, 493
Sau96I	GGNCC	1 cut(s)	266
SchI	GAGTC	2 cut(s)	228, 647
SduI	GDGCHC	3 cut(s)	350, 549, 702
SfaNI	GCATC	2 cut(s)	19, 595
SgrAI	CRCCGGYG	1 cut(s)	194
SinI	GGWCC	1 cut(s)	266
SmiMI	CAYNNNNRTG	1 cut(s)	523
SpeI	ACTAGT	1 cut(s)	109
Sse9I	AATT	4 cut(s)	7, 400, 529, 687
SsiI	CCGC	1 cut(s)	557
SspMI	CTAG	5 cut(s)	110, 236, 353, 417, 596
SstI	GAGCTC	1 cut(s)	549
StyI	CCWWGG	4 cut(s)	149, 272, 582, 669
TaaI	ACNGT	2 cut(s)	343, 439
TaiI	ACGT	1 cut(s)	668
TaqI	TCGA	2 cut(s)	404, 428
TasI	AATT	4 cut(s)	7, 400, 529, 687
TatI	WGTACW	1 cut(s)	439
TfiI	GAWTC	2 cut(s)	101, 232
Tru1I	TTAA	3 cut(s)	249, 540, 611
Tru9I	TTAA	3 cut(s)	249, 540, 611
TscAI	CASTG	2 cut(s)	346, 442
TseFI	GTSAC	1 cut(s)	190
TseI	GCWGC	2 cut(s)	32, 656
Tsp45I	GTSAC	1 cut(s)	190
TspGWI	ACGGA	1 cut(s)	251
TspRI	CASTG	2 cut(s)	346, 442
VpaK11BI	GGWCC	1 cut(s)	266
VspI	ATTAAT	2 cut(s)	249, 611
XbaI	TCTAGA	1 cut(s)	235
XmnI	GAANNNNTTC	1 cut(s)	719
XspI	CTAG	5 cut(s)	110, 236, 353, 417, 596
Zsp2I	ATGCAT	1 cut(s)	610

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