Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0008487

Physical Location & Seq

Genomic Coordinates Forward (+)

58970888 .. 58974886

Gene Structure 3999 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00041200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGATGCCTTCGGCTCAAGATCCGTTCTATGTTGTGAAAGAGGAGATTCAAGAATCTATCGATAAGCTGCAGTCTTCTTTTCACCAATGGGAACGTATTTCATCTAACGGTGGACAACAACTTCAACTCACGAAGGAGCTGCTTGCCACTTGTGGAAGCATCGAGTGGCAGGTAGATGAACTGGACAAAGCAATATCTGTAGCGGCTAGAGATCCCAGTTTTTATGGTATTGATGAAGTGGAACTTGAAAAGCGAAGGAGATGGACAAGCACTGCTCGTGCTCAGGTAGGTGCGGTAAAAAAAGCAGTGGAAGCTGGAAAGGAGTCCTCTGGAACTAGCGCAGCTGGAATGCGACGGGAACTAATGAGGCTGGCAAATTCTCAGGAGACAGACAGATCCAACCAATATGCTGCACTCCATAACGATGATTTCATAACATCAGAATCAGATAGACAGTTGCTTCTCATAAAGCAACAAGATGAGGAGTTGGACGAACTCAGTGCCAGTGTGGAGAGAATTGGAGGTGTCGGACTTACCATACATGAAGAGCTCCTGGCACAGGACAAGATTGTAGAGGAGTTGGGTATGGAAATGGACAGTACGTCAAACCGGCTTGATTTTGTTCAGAAAAAGGTGGCAACAGTGATGAAGAAGGCCGGTGTAAAAGGCCAGATTATGATGATACTCTTTTTGGTGGTTTTGTTCATCATTCTTTTTGTTTTGGTCTTCCTCACCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000139 GO:0000149 GO:0003674 GO:0005484 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0005794 GO:0005802 GO:0006810 GO:0006886 GO:0006906 GO:0006996 GO:0008104 GO:0008150 GO:0009987 GO:0010008 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016021 GO:0016043 GO:0016050 GO:0016192 GO:0022406 GO:0031090 GO:0031201 GO:0031224 GO:0031410 GO:0031902 GO:0031982 GO:0031984 GO:0032588 GO:0032991 GO:0033036 GO:0034613 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044431 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048278 GO:0048284 GO:0051179 GO:0051234 GO:0051640 GO:0051641 GO:0051649 GO:0061024 GO:0061025 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0090174 GO:0097708 GO:0098588 GO:0098791 GO:0098796 GO:0098805 GO:0140056

KEGG Pathways

Metabolic & Signaling

ko04130 map04130

Pfam Domains

Protein Families

SNARE Syntaxin-6_N

Protein Analysis

245

Amino Acids

27.52

Weight (kDa)

4.9

Isoelectric Point (pI)

49.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
STX6_10_61_N	PF09177	7 - 100	7.4e-27	Syntaxin 6/10/61, N-terminal
SNARE	PF05739	190 - 241	2.1e-07	SNARE domain

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

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Orthologous Genes (Group: OG0008487)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28490 AT1G28490 AT1G28490
fragaria_vesca	FvH4_3g22850 FvH4_3g22850 FvH4_3g22850
malus_domestica	MD03G1200000.v1.1 MD11G1217000.v1.1
prunus_persica	Prupe.4G214600_v2.0.a1 Prupe.4G214600_v2.0.a1
pyrus_communis	pycom03g15170 pycom11g19090
rosa_chinensis	RchiOBHm_Chr5g0040091
rosa_laevigata	RLG00000033954
rosa_multiflora	Rmu_sc0000103.1_g000061
rosa_roxburghii	Rroxscaffold_1G00041200
rosa_rugosa	Rorug05G0183500 Rorug05G0183600
rosa_samantha	Rh5AG270000 Rh5BG273500 Rh5CG306500 Rh5DG281600
rosa_wichuraiana	Rw5G025240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	160
AciI	CCGC	2 cut(s)	203, 293
AclWI	GGATC	3 cut(s)	14, 206, 390
AcsI	RAATTY	1 cut(s)	376
AfaI	GTAC	1 cut(s)	601
AfiI	CCNNNNNNNGG	1 cut(s)	559
AgsI	TTSAA	3 cut(s)	50, 125, 248
AhdI	GACNNNNNGTC	1 cut(s)	601
AjnI	CCWGG	1 cut(s)	552
AluBI	AGCT	5 cut(s)	67, 139, 314, 344, 550
AluI	AGCT	5 cut(s)	67, 139, 314, 344, 550
Alw21I	GWGCWC	2 cut(s)	283, 552
Alw26I	GTCTC	1 cut(s)	380
AlwI	GGATC	3 cut(s)	14, 206, 390
AoxI	GGCC	2 cut(s)	654, 667
ApeKI	GCWGC	4 cut(s)	67, 139, 341, 410
ApoI	RAATTY	1 cut(s)	376
AspLEI	GCGC	1 cut(s)	341
AsuHPI	GGTGA	2 cut(s)	74, 724
BanII	GRGCYC	1 cut(s)	552
BauI	CACGAG	1 cut(s)	276
BbsI	GAAGAC	2 cut(s)	66, 718
Bbv12I	GWGCWC	2 cut(s)	283, 552
BbvI	GCAGC	4 cut(s)	54, 126, 353, 397
BccI	CCATC	1 cut(s)	255
BcgI	CGANNNNNNTGC	4 cut(s)	121, 155, 482, 516
BciT130I	CCWGG	1 cut(s)	554
BcoDI	GTCTC	1 cut(s)	380
BfaI	CTAG	3 cut(s)	207, 336, 736
BfmI	CTRYAG	2 cut(s)	68, 198
BfuAI	ACCTGC	1 cut(s)	160
BisI	GCNGC	5 cut(s)	68, 140, 204, 342, 411
BlsI	GCNGC	5 cut(s)	69, 141, 205, 343, 412
Bme1390I	CCNGG	1 cut(s)	554
BmeRI	GACNNNNNGTC	1 cut(s)	601
BmrFI	CCNGG	1 cut(s)	554
BmrI	ACTGGG	1 cut(s)	210
BmsI	GCATC	1 cut(s)	168
BmuI	ACTGGG	1 cut(s)	210
BpiI	GAAGAC	2 cut(s)	66, 718
Bpu10I	CCTNAGC	1 cut(s)	282
Bsa29I	ATCGAT	1 cut(s)	60
Bsc4I	CCNNNNNNNGG	1 cut(s)	559
Bse118I	RCCGGY	2 cut(s)	609, 656
Bse1I	ACTGG	3 cut(s)	186, 216, 504
BseBI	CCWGG	1 cut(s)	554
BseCI	ATCGAT	1 cut(s)	60
BseLI	CCNNNNNNNGG	1 cut(s)	559
BseMII	CTCAG	3 cut(s)	296, 395, 511
BseNI	ACTGG	3 cut(s)	186, 216, 504
BseRI	GAGGAG	3 cut(s)	56, 497, 590
BseXI	GCAGC	4 cut(s)	54, 126, 353, 397
BsgI	GTGCAG	1 cut(s)	396
BshFI	GGCC	2 cut(s)	656, 669
BshVI	ATCGAT	1 cut(s)	60
BsiHKAI	GWGCWC	2 cut(s)	283, 552
BsiSI	CCGG	2 cut(s)	610, 657
BslI	CCNNNNNNNGG	1 cut(s)	559
BsmAI	GTCTC	1 cut(s)	380
BsmI	GAATGC	1 cut(s)	354
BsnI	GGCC	2 cut(s)	656, 669
Bsp1286I	GDGCHC	2 cut(s)	283, 552
Bsp143I	GATC	3 cut(s)	19, 211, 395
BspACI	CCGC	2 cut(s)	203, 293
BspANI	GGCC	2 cut(s)	656, 669
BspCNI	CTCAG	3 cut(s)	295, 394, 510
BspDI	ATCGAT	1 cut(s)	60
BspMAI	CTGCAG	1 cut(s)	72
BspMI	ACCTGC	1 cut(s)	160
BspPI	GGATC	3 cut(s)	14, 206, 390
BspQI	GCTCTTC	1 cut(s)	540
BsrFI	RCCGGY	2 cut(s)	609, 656
BsrI	ACTGG	3 cut(s)	186, 216, 504
BssAI	RCCGGY	2 cut(s)	609, 656
BssMI	GATC	3 cut(s)	19, 211, 395
BssSI	CACGAG	1 cut(s)	276
Bst2BI	CACGAG	1 cut(s)	276
Bst2UI	CCWGG	1 cut(s)	554
Bst4CI	ACNGT	4 cut(s)	110, 456, 599, 643
Bst6I	CTCTTC	1 cut(s)	540
BstC8I	GCNNGC	2 cut(s)	144, 372
BstDEI	CTNAG	3 cut(s)	282, 381, 497
BstENI	CCTNNNNNAGG	1 cut(s)	557
BstHHI	GCGC	1 cut(s)	341
BstKTI	GATC	3 cut(s)	22, 214, 398
BstMAI	GTCTC	1 cut(s)	380
BstMBI	GATC	3 cut(s)	19, 211, 395
BstMWI	GCNNNNNNNGC	1 cut(s)	311
BstNI	CCWGG	1 cut(s)	554
BstSCI	CCNGG	1 cut(s)	552
BstSFI	CTRYAG	2 cut(s)	68, 198
BstV1I	GCAGC	4 cut(s)	54, 126, 353, 397
BstV2I	GAAGAC	2 cut(s)	66, 718
BstX2I	RGATCY	3 cut(s)	19, 211, 395
BstYI	RGATCY	3 cut(s)	19, 211, 395
Bsu15I	ATCGAT	1 cut(s)	60
BsuRI	GGCC	2 cut(s)	656, 669
BsuTUI	ATCGAT	1 cut(s)	60
BtsI	GCAGTG	2 cut(s)	270, 312
BtsIMutI	CAGTG	5 cut(s)	270, 312, 505, 511, 648
BveI	ACCTGC	1 cut(s)	160
Cac8I	GCNNGC	2 cut(s)	144, 372
CfoI	GCGC	1 cut(s)	341
Cfr10I	RCCGGY	2 cut(s)	609, 656
ClaI	ATCGAT	1 cut(s)	60
Csp6I	GTAC	1 cut(s)	600
CviAII	CATG	1 cut(s)	542
CviQI	GTAC	1 cut(s)	600
DdeI	CTNAG	3 cut(s)	282, 381, 497
DpnI	GATC	3 cut(s)	21, 213, 397
DpnII	GATC	3 cut(s)	19, 211, 395
DriI	GACNNNNNGTC	1 cut(s)	601
Eam1104I	CTCTTC	1 cut(s)	540
Eam1105I	GACNNNNNGTC	1 cut(s)	601
EarI	CTCTTC	1 cut(s)	540
Ecl136II	GAGCTC	1 cut(s)	550
Eco24I	GRGCYC	1 cut(s)	552
Eco53kI	GAGCTC	1 cut(s)	550
EcoICRI	GAGCTC	1 cut(s)	550
EcoNI	CCTNNNNNAGG	1 cut(s)	557
EcoRII	CCWGG	1 cut(s)	552
EcoT38I	GRGCYC	1 cut(s)	552
FaeI	CATG	1 cut(s)	545
FalI	AAGNNNNNCTT	2 cut(s)	228, 260
FatI	CATG	1 cut(s)	541
Fnu4HI	GCNGC	5 cut(s)	68, 140, 204, 342, 411
FriOI	GRGCYC	1 cut(s)	552
Fsp4HI	GCNGC	5 cut(s)	68, 140, 204, 342, 411
FspBI	CTAG	3 cut(s)	207, 336, 736
GlaI	GCGC	1 cut(s)	340
GluI	GCNGC	5 cut(s)	68, 140, 204, 342, 411
HaeIII	GGCC	2 cut(s)	656, 669
HapII	CCGG	2 cut(s)	610, 657
HhaI	GCGC	1 cut(s)	341
Hin1II	CATG	1 cut(s)	545
Hin6I	GCGC	1 cut(s)	339
HinP1I	GCGC	1 cut(s)	339
HinfI	GANTC	4 cut(s)	46, 53, 323, 443
HpaII	CCGG	2 cut(s)	610, 657
HphI	GGTGA	2 cut(s)	74, 724
Hpy166II	GTNNAC	1 cut(s)	113
Hpy188I	TCNGA	4 cut(s)	442, 448, 530, 627
Hpy188III	TCNNGA	5 cut(s)	17, 50, 130, 330, 383
Hpy8I	GTNNAC	1 cut(s)	113
Hpy99I	CGWCG	1 cut(s)	357
HpyAV	CCTTC	4 cut(s)	18, 127, 249, 646
HpyCH4III	ACNGT	4 cut(s)	110, 456, 599, 643
HpyCH4IV	ACGT	2 cut(s)	94, 602
HpyCH4V	TGCA	2 cut(s)	70, 413
HpyF10VI	GCNNNNNNNGC	1 cut(s)	311
HpyF3I	CTNAG	3 cut(s)	282, 381, 497
HpySE526I	ACGT	2 cut(s)	94, 602
Hsp92II	CATG	1 cut(s)	545
HspAI	GCGC	1 cut(s)	339
Kzo9I	GATC	3 cut(s)	19, 211, 395
LguI	GCTCTTC	1 cut(s)	540
LmnI	GCTCC	2 cut(s)	136, 555
Lsp1109I	GCAGC	4 cut(s)	54, 126, 353, 397
LweI	GCATC	1 cut(s)	168
MaeI	CTAG	3 cut(s)	207, 336, 736
MaeII	ACGT	2 cut(s)	94, 602
MalI	GATC	3 cut(s)	21, 213, 397
MboI	GATC	3 cut(s)	19, 211, 395
MboII	GAAGA	4 cut(s)	66, 557, 661, 718
MflI	RGATCY	3 cut(s)	19, 211, 395
MhlI	GDGCHC	2 cut(s)	283, 552
MluCI	AATT	2 cut(s)	376, 516
MlyI	GAGTC	1 cut(s)	332
MmeI	TCCRAC	3 cut(s)	423, 468, 508
MnlI	CCTC	6 cut(s)	34, 337, 360, 475, 515, 568
MslI	CAYNNNNRTG	1 cut(s)	423
MspA1I	CMGCKG	1 cut(s)	344
MspI	CCGG	2 cut(s)	610, 657
MspR9I	CCNGG	1 cut(s)	554
Mva1269I	GAATGC	1 cut(s)	354
MvaI	CCWGG	1 cut(s)	554
MwoI	GCNNNNNNNGC	1 cut(s)	311
NdeII	GATC	3 cut(s)	19, 211, 395
NlaIII	CATG	1 cut(s)	545
PciSI	GCTCTTC	1 cut(s)	540
PctI	GAATGC	1 cut(s)	354
PfeI	GAWTC	3 cut(s)	46, 53, 443
PkrI	GCNGC	5 cut(s)	69, 141, 205, 343, 412
PleI	GAGTC	1 cut(s)	331
PpsI	GAGTC	1 cut(s)	331
Psp124BI	GAGCTC	1 cut(s)	552
Psp6I	CCWGG	1 cut(s)	552
PspGI	CCWGG	1 cut(s)	552
PstI	CTGCAG	1 cut(s)	72
PsuI	RGATCY	3 cut(s)	19, 211, 395
PvuII	CAGCTG	1 cut(s)	344
RsaI	GTAC	1 cut(s)	601
RsaNI	GTAC	1 cut(s)	600
RseI	CAYNNNNRTG	1 cut(s)	423
SacI	GAGCTC	1 cut(s)	552
SapI	GCTCTTC	1 cut(s)	540
SatI	GCNGC	5 cut(s)	68, 140, 204, 342, 411
Sau3AI	GATC	3 cut(s)	19, 211, 395
SchI	GAGTC	1 cut(s)	332
ScrFI	CCNGG	1 cut(s)	554
SduI	GDGCHC	2 cut(s)	283, 552
SfaNI	GCATC	1 cut(s)	168
SfcI	CTRYAG	2 cut(s)	68, 198
SmiMI	CAYNNNNRTG	1 cut(s)	423
SmlI	CTYRAG	1 cut(s)	15
SmoI	CTYRAG	1 cut(s)	15
Sse9I	AATT	2 cut(s)	376, 516
SsiI	CCGC	2 cut(s)	203, 293
SspMI	CTAG	3 cut(s)	207, 336, 736
SstI	GAGCTC	1 cut(s)	552
StyD4I	CCNGG	1 cut(s)	552
TaaI	ACNGT	4 cut(s)	110, 456, 599, 643
TaiI	ACGT	2 cut(s)	97, 605
TaqI	TCGA	2 cut(s)	60, 162
TasI	AATT	2 cut(s)	376, 516
TauI	GCSGC	1 cut(s)	206
TfiI	GAWTC	3 cut(s)	46, 53, 443
TscAI	CASTG	5 cut(s)	277, 312, 505, 511, 648
TseI	GCWGC	4 cut(s)	67, 139, 341, 410
TspDTI	ATGAA	7 cut(s)	90, 192, 249, 421, 558, 662, 694
TspGWI	ACGGA	1 cut(s)	12
TspRI	CASTG	5 cut(s)	277, 312, 505, 511, 648
XagI	CCTNNNNNAGG	1 cut(s)	557
XapI	RAATTY	1 cut(s)	376
XspI	CTAG	3 cut(s)	207, 336, 736

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