Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0004239

Physical Location & Seq

Genomic Coordinates Reverse (-)

10954072 .. 10959036

Gene Structure 4965 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0133900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGGCTGGGAAAGGTTTCAACAGTGAAAGATGGTCTCTAAAAGGCAAGACCGCCCTCGTCACTGGTGGAACGAAAGGCATCGGGTTTGCAATTGTGGAGGAGCTAGCGGGACTTGGCGCAACTGTACATACCTGTGCTCGTAACGAAGCCCTGCTTAATGAGAGGATTCAAGAATGGGAGAGTAAGGGATTTAAAGTGAGTAGTTCAGTTTGTGACCTGACCTCTAAATCCCAAAGGGAGGAGCTGTTGGAGACTGTCTCCTCTGTTTTCGATGGAAAGCTTAACATCCTTGTAAATAATGCAGCAACTGTCACGCTCAGAACTACTACAGACTATTCTTTGGAAGATTTTTCAAGCATGATGAGTACCAATGTCGAATCTCCTTACCACCTTTGTCAACTTGCACATCCTCTCTTGAAGGCCTCAGGCAATGGAAGCATTGTATTCATCGCCTCCATCGCCGGTATAAAAGCTCTGCCTAGACTATCTGCCTACGCGGCAACAAAAAGCGCTGTCATCCAGATTTCGAAGAATTTGGCTTGTGAATGGGCACATGATAGTATTCGGGCAAACACTGTAGCACCATGGGCTGTCAACACCGGGGCTAAACCTGATAATGATGAGCATTCTGCTGACTTTAGACGCTTAATAGGTCGAACTCCCATCCGTCGCGTTGCGGAGCCTAATGAAATTTCATCCTTGGTGACTTTCCTCTGCCTTCCTGCTGCTTCATACATCACTGGACAAGTTGTTAGTATTGATGGAGGATTTACAGTTAGCGGTTTCTAG

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

Syntaxin-6_N

Protein Analysis

262

Amino Acids

28.03

Weight (kDa)

6.96

Isoelectric Point (pI)

29.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
adh_short	PF00106	16 - 207	4.9e-49	short chain dehydrogenase
KR	PF08659	17 - 171	2.2e-13	KR domain
adh_short_C2	PF13561	25 - 258	2.4e-55	Enoyl-(Acyl carrier protein) reductase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004239)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g18710 FvH4_6g18710 FvH4_6g18710 FvH4_6g18710 FvH4_6g18710 FvH4_6g18710 FvH4_6g18710
malus_domestica	MD12G1036300.v1.1 MD14G1023100.v1.1
prunus_persica	Prupe.7G110100_v2.0.a1 Prupe.7G110100_v2.0.a1 Prupe.7G110100_v2.0.a1 Prupe.7G110100_v2.0.a1 Prupe.7G110100_v2.0.a1 Prupe.7G110100_v2.0.a1 Prupe.7G110100_v2.0.a1
pyrus_communis	pycom14g02200
rosa_chinensis	RchiOBHm_Chr3g0473681
rosa_laevigata	RLG00000023994
rosa_multiflora	Rmu_sc0003069.1_g000003 Rmu_sc0004984.1_g000006 Rmu_sc0005978.1_g000004
rosa_roxburghii	Rroxscaffold_6G00407950
rosa_rugosa	Rorug03G0133900 Rorug03G0133900 Rorug03G0134000 Rorug03G0134100 Rorug03G0134200
rosa_samantha	Rh3AG185500 Rh3BG213500 Rh3CG210200 Rh3DG209300
rosa_wichuraiana	Rw0G008880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	497, 672
AciI	CCGC	5 cut(s)	51, 107, 497, 677, 780
AcsI	RAATTY	2 cut(s)	532, 690
AfaI	GTAC	2 cut(s)	126, 367
AfeI	AGCGCT	1 cut(s)	511
AfiI	CCNNNNNNNGG	1 cut(s)	238
AgsI	TTSAA	4 cut(s)	19, 170, 354, 418
AluBI	AGCT	4 cut(s)	103, 244, 280, 473
AluI	AGCT	4 cut(s)	103, 244, 280, 473
Alw21I	GWGCWC	1 cut(s)	139
Alw26I	GTCTC	3 cut(s)	39, 245, 262
AlwNI	CAGNNNCTG	1 cut(s)	308
Aor51HI	AGCGCT	1 cut(s)	511
AoxI	GGCC	1 cut(s)	420
ApeKI	GCWGC	2 cut(s)	302, 725
ApoI	RAATTY	2 cut(s)	532, 690
Asp700I	GAANNNNTTC	1 cut(s)	14
AspLEI	GCGC	2 cut(s)	119, 512
AsuC2I	CCSGG	1 cut(s)	601
AsuHPI	GGTGA	1 cut(s)	715
AsuII	TTCGAA	1 cut(s)	527
AsuNHI	GCTAGC	1 cut(s)	103
AxyI	CCTNAGG	1 cut(s)	424
BaeGI	GKGCMC	1 cut(s)	553
Bbv12I	GWGCWC	1 cut(s)	139
BbvI	GCAGC	2 cut(s)	314, 712
BccI	CCATC	5 cut(s)	24, 266, 464, 671, 755
BcnI	CCSGG	1 cut(s)	601
BcoDI	GTCTC	3 cut(s)	39, 245, 262
BfaI	CTAG	3 cut(s)	104, 480, 787
BfmI	CTRYAG	2 cut(s)	327, 576
BfoI	RGCGCY	1 cut(s)	513
BglI	GCCNNNNNGGC	1 cut(s)	497
BisI	GCNGC	3 cut(s)	303, 498, 726
BlsI	GCNGC	3 cut(s)	304, 499, 727
Bme1390I	CCNGG	1 cut(s)	601
BmiI	GGNNCC	1 cut(s)	681
BmrFI	CCNGG	1 cut(s)	601
BmsI	GCATC	1 cut(s)	87
BmtI	GCTAGC	1 cut(s)	107
BplI	GAGNNNNNCTC	2 cut(s)	242, 274
Bpu14I	TTCGAA	1 cut(s)	527
BpuMI	CCSGG	1 cut(s)	601
BsaI	GGTCTC	1 cut(s)	39
BsaJI	CCNNGG	3 cut(s)	584, 600, 699
BsaXI	ACNNNNNCTCC	2 cut(s)	230, 260
Bsc4I	CCNNNNNNNGG	1 cut(s)	238
Bse118I	RCCGGY	1 cut(s)	461
Bse1I	ACTGG	2 cut(s)	67, 745
Bse21I	CCTNAGG	1 cut(s)	424
Bse3DI	GCAATG	1 cut(s)	436
BseDI	CCNNGG	3 cut(s)	584, 600, 699
BseGI	GGATG	5 cut(s)	285, 406, 516, 663, 695
BseLI	CCNNNNNNNGG	1 cut(s)	238
BseMI	GCAATG	1 cut(s)	436
BseMII	CTCAG	2 cut(s)	331, 438
BseNI	ACTGG	2 cut(s)	67, 745
BseRI	GAGGAG	3 cut(s)	113, 250, 254
BseSI	GKGCMC	1 cut(s)	553
BseXI	GCAGC	2 cut(s)	314, 712
BseYI	CCCAGC	1 cut(s)	5
Bsh1236I	CGCG	2 cut(s)	497, 672
BshFI	GGCC	1 cut(s)	422
BsiHKAI	GWGCWC	1 cut(s)	139
BsiSI	CCGG	2 cut(s)	462, 600
BslFI	GGGAC	1 cut(s)	123
BslI	CCNNNNNNNGG	1 cut(s)	238
BsmAI	GTCTC	3 cut(s)	39, 245, 262
BsmFI	GGGAC	1 cut(s)	123
BsmI	GAATGC	1 cut(s)	625
BsnI	GGCC	1 cut(s)	422
Bso31I	GGTCTC	1 cut(s)	39
Bsp119I	TTCGAA	1 cut(s)	527
Bsp1286I	GDGCHC	2 cut(s)	139, 553
Bsp1407I	TGTACA	1 cut(s)	124
Bsp19I	CCATGG	1 cut(s)	584
BspACI	CCGC	5 cut(s)	51, 107, 497, 677, 780
BspANI	GGCC	1 cut(s)	422
BspCNI	CTCAG	2 cut(s)	330, 437
BspFNI	CGCG	2 cut(s)	497, 672
BspLI	GGNNCC	1 cut(s)	681
BspOI	GCTAGC	1 cut(s)	107
BspT104I	TTCGAA	1 cut(s)	527
BspTNI	GGTCTC	1 cut(s)	39
BsrDI	GCAATG	1 cut(s)	436
BsrFI	RCCGGY	1 cut(s)	461
BsrGI	TGTACA	1 cut(s)	124
BsrI	ACTGG	2 cut(s)	67, 745
BssAI	RCCGGY	1 cut(s)	461
BssECI	CCNNGG	3 cut(s)	584, 600, 699
BssT1I	CCWWGG	2 cut(s)	584, 699
Bst4CI	ACNGT	6 cut(s)	23, 124, 256, 310, 577, 775
BstAUI	TGTACA	1 cut(s)	124
BstBI	TTCGAA	1 cut(s)	527
BstC8I	GCNNGC	1 cut(s)	105
BstDEI	CTNAG	2 cut(s)	317, 424
BstDSI	CCRYGG	1 cut(s)	584
BstF5I	GGATG	5 cut(s)	285, 406, 516, 663, 695
BstFNI	CGCG	2 cut(s)	497, 672
BstH2I	RGCGCY	1 cut(s)	513
BstHHI	GCGC	2 cut(s)	119, 512
BstMAI	GTCTC	3 cut(s)	39, 245, 262
BstMWI	GCNNNNNNNGC	4 cut(s)	435, 458, 497, 587
BstSCI	CCNGG	1 cut(s)	599
BstSFI	CTRYAG	2 cut(s)	327, 576
BstSLI	GKGCMC	1 cut(s)	553
BstUI	CGCG	2 cut(s)	497, 672
BstV1I	GCAGC	2 cut(s)	314, 712
Bsu36I	CCTNAGG	1 cut(s)	424
BsuRI	GGCC	1 cut(s)	422
BtgI	CCRYGG	1 cut(s)	584
BtgZI	GCGATG	2 cut(s)	433, 442
BtsCI	GGATG	5 cut(s)	285, 406, 516, 663, 695
BtsIMutI	CAGTG	4 cut(s)	28, 60, 573, 738
Cac8I	GCNNGC	1 cut(s)	105
CaiI	CAGNNNCTG	1 cut(s)	308
CfoI	GCGC	2 cut(s)	119, 512
Cfr10I	RCCGGY	1 cut(s)	461
CseI	GACGC	1 cut(s)	651
Csp6I	GTAC	2 cut(s)	125, 366
CviAII	CATG	3 cut(s)	358, 554, 585
CviQI	GTAC	2 cut(s)	125, 366
DdeI	CTNAG	2 cut(s)	317, 424
DraI	TTTAAA	1 cut(s)	193
Eco130I	CCWWGG	2 cut(s)	584, 699
Eco147I	AGGCCT	1 cut(s)	422
Eco31I	GGTCTC	1 cut(s)	39
Eco47III	AGCGCT	1 cut(s)	511
Eco81I	CCTNAGG	1 cut(s)	424
EcoT14I	CCWWGG	2 cut(s)	584, 699
ErhI	CCWWGG	2 cut(s)	584, 699
FaeI	CATG	3 cut(s)	361, 557, 588
FaiI	YATR	6 cut(s)	129, 359, 467, 555, 586, 733
FalI	AAGNNNNNCTT	2 cut(s)	138, 170
FaqI	GGGAC	1 cut(s)	123
FatI	CATG	3 cut(s)	357, 553, 584
FauI	CCCGC	1 cut(s)	100
Fnu4HI	GCNGC	3 cut(s)	303, 498, 726
FokI	GGATG	5 cut(s)	272, 393, 503, 650, 682
Fsp4HI	GCNGC	3 cut(s)	303, 498, 726
FspBI	CTAG	3 cut(s)	104, 480, 787
GlaI	GCGC	2 cut(s)	118, 511
GluI	GCNGC	3 cut(s)	303, 498, 726
GsaI	CCCAGC	1 cut(s)	9
HaeII	RGCGCY	1 cut(s)	513
HaeIII	GGCC	1 cut(s)	422
HapII	CCGG	2 cut(s)	462, 600
HgaI	GACGC	1 cut(s)	651
HhaI	GCGC	2 cut(s)	119, 512
Hin1II	CATG	3 cut(s)	361, 557, 588
Hin6I	GCGC	2 cut(s)	117, 510
HinP1I	GCGC	2 cut(s)	117, 510
HincII	GTYRAC	2 cut(s)	398, 595
HindII	GTYRAC	2 cut(s)	398, 595
HindIII	AAGCTT	1 cut(s)	278
HinfI	GANTC	2 cut(s)	166, 377
HpaII	CCGG	2 cut(s)	462, 600
HphI	GGTGA	1 cut(s)	715
Hpy166II	GTNNAC	2 cut(s)	398, 595
Hpy188I	TCNGA	1 cut(s)	320
Hpy188III	TCNNGA	3 cut(s)	170, 415, 520
Hpy8I	GTNNAC	2 cut(s)	398, 595
Hpy99I	CGWCG	1 cut(s)	672
HpyAV	CCTTC	2 cut(s)	412, 728
HpyCH4III	ACNGT	6 cut(s)	23, 124, 256, 310, 577, 775
HpyCH4V	TGCA	3 cut(s)	89, 302, 404
HpyF10VI	GCNNNNNNNGC	4 cut(s)	435, 458, 497, 587
HpyF3I	CTNAG	2 cut(s)	317, 424
Hsp92II	CATG	3 cut(s)	361, 557, 588
HspAI	GCGC	2 cut(s)	117, 510
LmnI	GCTCC	3 cut(s)	100, 241, 679
Lsp1109I	GCAGC	2 cut(s)	314, 712
LweI	GCATC	1 cut(s)	87
MaeI	CTAG	3 cut(s)	104, 480, 787
MaeIII	GTNAC	5 cut(s)	58, 140, 212, 310, 703
MboII	GAAGA	2 cut(s)	356, 541
MfeI	CAATTG	1 cut(s)	90
MhlI	GDGCHC	2 cut(s)	139, 553
MluCI	AATT	3 cut(s)	90, 532, 690
MmeI	TCCRAC	1 cut(s)	228
MroXI	GAANNNNTTC	1 cut(s)	14
MseI	TTAA	4 cut(s)	156, 192, 282, 647
MslI	CAYNNNNRTG	1 cut(s)	132
MspI	CCGG	2 cut(s)	462, 600
MspR9I	CCNGG	1 cut(s)	601
MunI	CAATTG	1 cut(s)	90
Mva1269I	GAATGC	1 cut(s)	625
MvnI	CGCG	2 cut(s)	497, 672
MwoI	GCNNNNNNNGC	4 cut(s)	435, 458, 497, 587
NciI	CCSGG	1 cut(s)	601
NcoI	CCATGG	1 cut(s)	584
NheI	GCTAGC	1 cut(s)	103
NlaIII	CATG	3 cut(s)	361, 557, 588
NlaIV	GGNNCC	1 cut(s)	681
NmuCI	GTSAC	4 cut(s)	58, 212, 310, 703
NspV	TTCGAA	1 cut(s)	527
PceI	AGGCCT	1 cut(s)	422
PctI	GAATGC	1 cut(s)	625
PdmI	GAANNNNTTC	1 cut(s)	14
PfeI	GAWTC	2 cut(s)	166, 377
PkrI	GCNGC	3 cut(s)	304, 499, 727
PspFI	CCCAGC	1 cut(s)	5
PspN4I	GGNNCC	1 cut(s)	681
PstNI	CAGNNNCTG	1 cut(s)	308
RsaI	GTAC	2 cut(s)	126, 367
RsaNI	GTAC	2 cut(s)	125, 366
RseI	CAYNNNNRTG	1 cut(s)	132
SaqAI	TTAA	4 cut(s)	156, 192, 282, 647
SatI	GCNGC	3 cut(s)	303, 498, 726
ScrFI	CCNGG	1 cut(s)	601
SduI	GDGCHC	2 cut(s)	139, 553
SfaNI	GCATC	1 cut(s)	87
SfcI	CTRYAG	2 cut(s)	327, 576
SfuI	TTCGAA	1 cut(s)	527
SmiMI	CAYNNNNRTG	1 cut(s)	132
Sse9I	AATT	3 cut(s)	90, 532, 690
SseBI	AGGCCT	1 cut(s)	422
SsiI	CCGC	5 cut(s)	51, 107, 497, 677, 780
SspMI	CTAG	3 cut(s)	104, 480, 787
StuI	AGGCCT	1 cut(s)	422
StyD4I	CCNGG	1 cut(s)	599
StyI	CCWWGG	2 cut(s)	584, 699
TaaI	ACNGT	6 cut(s)	23, 124, 256, 310, 577, 775
TaqI	TCGA	4 cut(s)	270, 375, 527, 655
TasI	AATT	3 cut(s)	90, 532, 690
TatI	WGTACW	1 cut(s)	124
TauI	GCSGC	1 cut(s)	500
TfiI	GAWTC	2 cut(s)	166, 377
Tru1I	TTAA	4 cut(s)	156, 192, 282, 647
Tru9I	TTAA	4 cut(s)	156, 192, 282, 647
TscAI	CASTG	4 cut(s)	28, 67, 580, 745
TseFI	GTSAC	4 cut(s)	58, 212, 310, 703
TseI	GCWGC	2 cut(s)	302, 725
Tsp45I	GTSAC	4 cut(s)	58, 212, 310, 703
TspDTI	ATGAA	4 cut(s)	436, 684, 702, 720
TspGWI	ACGGA	1 cut(s)	656
TspRI	CASTG	4 cut(s)	28, 67, 580, 745
XapI	RAATTY	2 cut(s)	532, 690
XmnI	GAANNNNTTC	1 cut(s)	14
XspI	CTAG	3 cut(s)	104, 480, 787

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