Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0008487

Physical Location & Seq

Genomic Coordinates Forward (+)

10015856 .. 10018047

Gene Structure 2192 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G28490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGTCTTCAGCTCAAGATCCATTCTACATTGTTAAAGAAGAGATTCAGGATTCTATTGATAAGTTGCAATCTACATTCCACAAATGGGAGCGTATCTCTCCCGACATGGGTGATCAAGCACATGTGGCGAAGGAGCTTGTTGCTACTTGTGGAAGCATTGAGTGGCAGGTAGATGAGCTGGAAAAAGCGATTACTGTTGCAGCAAAAGATCCTTCATGGTATGGCATTGATGAAGCTGAGCTTGAAAAACGGAGGAGATGGACTAGTAATGCTAGGACACAGGTGCGGAATGTGAAGTCTGGTGTTTTAGCTGGAAAGGTTAGTTCTGGAGCAGGTCATGCAAGTGAAGTGCGTAGAGAACTAATGAGAATGCCAAACTCGGGTGAAGCAAGTAGATATGATCAGTATGGAGGGAGAGACGATGATGGTTTTGTACAGTCAGAATCAGATAGGCAAATGCTGTTGATAAAGCAACAAGACGAAGAATTGGATGAGCTTAGTAAAAGTGTACAGAGAATTGGAGGAGTGGGGCTCACTATACACGACGAACTCGTTGCACAGGAGAGAATAATAGATGAATTGGATACGGAGATGGACAGCACAAAGAACCGTCTTGAATTTGTTCAGAAAAAAGTGGGAATGGTAATGAAGAAAGCTGGAGCAAAAGGTCAAATGATGATGATATGTTTCTTGCTCGTCTTGTTCATCATCCTATTCGTTCTTGTCTTCTTGACCTAA

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

27.72

Weight (kDa)

5.11

Isoelectric Point (pI)

45.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
STX6_10_61_N	PF09177	6 - 99	3e-27	Syntaxin 6/10/61, N-terminal
SNARE	PF05739	190 - 241	5.4e-12	SNARE domain

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: 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	2 cut(s)	157, 323
AciI	CCGC	1 cut(s)	286
AclWI	GGATC	2 cut(s)	11, 203
AcsI	RAATTY	1 cut(s)	617
AfaI	GTAC	2 cut(s)	435, 510
AfiI	CCNNNNNNNGG	3 cut(s)	85, 107, 380
AflIII	ACRYGT	1 cut(s)	121
AgsI	TTSAA	2 cut(s)	245, 617
AhlI	ACTAGT	1 cut(s)	263
AluBI	AGCT	8 cut(s)	11, 136, 178, 236, 241, 311, 496, 656
AluI	AGCT	8 cut(s)	11, 136, 178, 236, 241, 311, 496, 656
Alw26I	GTCTC	1 cut(s)	411
AlwI	GGATC	2 cut(s)	11, 203
Ama87I	CYCGRG	1 cut(s)	379
ApeKI	GCWGC	1 cut(s)	200
ApoI	RAATTY	1 cut(s)	617
Asp700I	GAANNNNTTC	2 cut(s)	42, 621
AsuHPI	GGTGA	2 cut(s)	122, 395
AvaI	CYCGRG	1 cut(s)	379
BanII	GRGCYC	1 cut(s)	534
BbsI	GAAGAC	1 cut(s)	718
BbvI	GCAGC	1 cut(s)	212
BccI	CCATC	3 cut(s)	252, 419, 586
BcgI	CGANNNNNNTGC	2 cut(s)	536, 570
BciVI	GTATCC	1 cut(s)	577
BclI	TGATCA	2 cut(s)	112, 400
BcoDI	GTCTC	1 cut(s)	411
BcuI	ACTAGT	1 cut(s)	263
BfaI	CTAG	2 cut(s)	264, 273
BfuAI	ACCTGC	2 cut(s)	157, 323
BfuI	GTATCC	1 cut(s)	577
BisI	GCNGC	1 cut(s)	201
BlpI	GCTNAGC	1 cut(s)	237
BlsI	GCNGC	1 cut(s)	202
BmeT110I	CYCGRG	1 cut(s)	379
BpiI	GAAGAC	1 cut(s)	718
BplI	GAGNNNNNCTC	4 cut(s)	80, 112, 516, 548
BpmI	CTGGAG	2 cut(s)	348, 678
Bpu1102I	GCTNAGC	1 cut(s)	237
Bsc4I	CCNNNNNNNGG	3 cut(s)	85, 107, 380
BseGI	GGATG	2 cut(s)	496, 708
BseLI	CCNNNNNNNGG	3 cut(s)	85, 107, 380
BseMII	CTCAG	1 cut(s)	228
BseRI	GAGGAG	2 cut(s)	268, 537
BseXI	GCAGC	1 cut(s)	212
BsiHKCI	CYCGRG	1 cut(s)	379
BslI	CCNNNNNNNGG	3 cut(s)	85, 107, 380
BsmAI	GTCTC	1 cut(s)	411
BsmBI	CGTCTC	1 cut(s)	411
BsmI	GAATGC	1 cut(s)	375
BsoBI	CYCGRG	1 cut(s)	379
Bsp1286I	GDGCHC	1 cut(s)	534
Bsp1407I	TGTACA	2 cut(s)	433, 508
Bsp143I	GATC	4 cut(s)	16, 112, 208, 400
Bsp1720I	GCTNAGC	1 cut(s)	237
BspACI	CCGC	1 cut(s)	286
BspCNI	CTCAG	1 cut(s)	229
BspMI	ACCTGC	2 cut(s)	157, 323
BspPI	GGATC	2 cut(s)	11, 203
BsrGI	TGTACA	2 cut(s)	433, 508
BssMI	GATC	4 cut(s)	16, 112, 208, 400
Bst4CI	ACNGT	3 cut(s)	196, 438, 611
Bst6I	CTCTTC	1 cut(s)	33
BstAPI	GCANNNNNTGC	1 cut(s)	338
BstAUI	TGTACA	2 cut(s)	433, 508
BstDEI	CTNAG	2 cut(s)	237, 497
BstF5I	GGATG	2 cut(s)	496, 708
BstKTI	GATC	4 cut(s)	19, 115, 211, 403
BstMAI	GTCTC	1 cut(s)	411
BstMBI	GATC	4 cut(s)	16, 112, 208, 400
BstMWI	GCNNNNNNNGC	2 cut(s)	125, 338
BstNSI	RCATGY	1 cut(s)	125
BstV1I	GCAGC	1 cut(s)	212
BstV2I	GAAGAC	1 cut(s)	718
BstX2I	RGATCY	2 cut(s)	16, 208
BstYI	RGATCY	2 cut(s)	16, 208
BsuI	GTATCC	1 cut(s)	577
BtsCI	GGATG	2 cut(s)	496, 708
BveI	ACCTGC	2 cut(s)	157, 323
Csp6I	GTAC	2 cut(s)	434, 509
CviAII	CATG	4 cut(s)	106, 122, 216, 338
CviJI	RGCY	9 cut(s)	11, 136, 178, 236, 241, 311, 496, 532, 656
CviKI_1	RGCY	9 cut(s)	11, 136, 178, 236, 241, 311, 496, 532, 656
CviQI	GTAC	2 cut(s)	434, 509
DdeI	CTNAG	2 cut(s)	237, 497
DpnI	GATC	4 cut(s)	18, 114, 210, 402
DpnII	GATC	4 cut(s)	16, 112, 208, 400
Eam1104I	CTCTTC	1 cut(s)	33
EarI	CTCTTC	1 cut(s)	33
Eco24I	GRGCYC	1 cut(s)	534
Eco88I	CYCGRG	1 cut(s)	379
EcoT38I	GRGCYC	1 cut(s)	534
Esp3I	CGTCTC	1 cut(s)	411
FaeI	CATG	4 cut(s)	109, 125, 219, 341
FaiI	YATR	9 cut(s)	107, 123, 217, 222, 339, 399, 408, 539, 685
FalI	AAGNNNNNCTT	2 cut(s)	225, 257
FatI	CATG	4 cut(s)	105, 121, 215, 337
FbaI	TGATCA	2 cut(s)	112, 400
Fnu4HI	GCNGC	1 cut(s)	201
FokI	GGATG	2 cut(s)	503, 695
FriOI	GRGCYC	1 cut(s)	534
Fsp4HI	GCNGC	1 cut(s)	201
FspBI	CTAG	2 cut(s)	264, 273
GluI	GCNGC	1 cut(s)	201
GsuI	CTGGAG	2 cut(s)	348, 678
Hin1II	CATG	4 cut(s)	109, 125, 219, 341
HinfI	GANTC	3 cut(s)	43, 50, 443
HphI	GGTGA	2 cut(s)	122, 395
Hpy166II	GTNNAC	1 cut(s)	509
Hpy188I	TCNGA	3 cut(s)	442, 448, 627
Hpy188III	TCNNGA	6 cut(s)	14, 47, 101, 327, 614, 730
Hpy8I	GTNNAC	1 cut(s)	509
Hpy99I	CGWCG	1 cut(s)	548
HpyAV	CCTTC	2 cut(s)	124, 222
HpyCH4III	ACNGT	3 cut(s)	196, 438, 611
HpyCH4V	TGCA	4 cut(s)	67, 200, 341, 557
HpyF10VI	GCNNNNNNNGC	2 cut(s)	125, 338
HpyF3I	CTNAG	2 cut(s)	237, 497
Hsp92II	CATG	4 cut(s)	109, 125, 219, 341
Ksp22I	TGATCA	2 cut(s)	112, 400
Kzo9I	GATC	4 cut(s)	16, 112, 208, 400
LmnI	GCTCC	4 cut(s)	88, 133, 329, 659
Lsp1109I	GCAGC	1 cut(s)	212
MaeI	CTAG	2 cut(s)	264, 273
MalI	GATC	4 cut(s)	18, 114, 210, 402
MboI	GATC	4 cut(s)	16, 112, 208, 400
MboII	GAAGA	4 cut(s)	50, 494, 661, 718
MflI	RGATCY	2 cut(s)	16, 208
MhlI	GDGCHC	1 cut(s)	534
MluCI	AATT	4 cut(s)	485, 516, 578, 617
MnlI	CCTC	3 cut(s)	246, 404, 515
MroXI	GAANNNNTTC	2 cut(s)	42, 621
MseI	TTAA	1 cut(s)	33
MslI	CAYNNNNRTG	1 cut(s)	342
Mva1269I	GAATGC	1 cut(s)	375
MwoI	GCNNNNNNNGC	2 cut(s)	125, 338
NdeII	GATC	4 cut(s)	16, 112, 208, 400
NlaIII	CATG	4 cut(s)	109, 125, 219, 341
NspI	RCATGY	1 cut(s)	125
PciI	ACATGT	1 cut(s)	121
PcsI	WCGNNNNNNNCGW	1 cut(s)	549
PctI	GAATGC	1 cut(s)	375
PdmI	GAANNNNTTC	2 cut(s)	42, 621
PfeI	GAWTC	3 cut(s)	43, 50, 443
PkrI	GCNGC	1 cut(s)	202
PscI	ACATGT	1 cut(s)	121
PsuI	RGATCY	2 cut(s)	16, 208
RsaI	GTAC	2 cut(s)	435, 510
RsaNI	GTAC	2 cut(s)	434, 509
RseI	CAYNNNNRTG	1 cut(s)	342
SaqAI	TTAA	1 cut(s)	33
SatI	GCNGC	1 cut(s)	201
Sau3AI	GATC	4 cut(s)	16, 112, 208, 400
SduI	GDGCHC	1 cut(s)	534
SmiMI	CAYNNNNRTG	1 cut(s)	342
SmlI	CTYRAG	1 cut(s)	12
SmoI	CTYRAG	1 cut(s)	12
SpeI	ACTAGT	1 cut(s)	263
Sse9I	AATT	4 cut(s)	485, 516, 578, 617
SsiI	CCGC	1 cut(s)	286
SspMI	CTAG	2 cut(s)	264, 273
TaaI	ACNGT	3 cut(s)	196, 438, 611
TasI	AATT	4 cut(s)	485, 516, 578, 617
TatI	WGTACW	2 cut(s)	433, 508
TfiI	GAWTC	3 cut(s)	43, 50, 443
Tru1I	TTAA	1 cut(s)	33
Tru9I	TTAA	1 cut(s)	33
TseI	GCWGC	1 cut(s)	200
TspDTI	ATGAA	5 cut(s)	204, 246, 591, 662, 694
TspGWI	ACGGA	2 cut(s)	265, 602
XapI	RAATTY	1 cut(s)	617
XceI	RCATGY	1 cut(s)	125
XmnI	GAANNNNTTC	2 cut(s)	42, 621
XspI	CTAG	2 cut(s)	264, 273

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