Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0002423

Physical Location & Seq

Genomic Coordinates Forward (+)

16726424 .. 16728207

Gene Structure 1784 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT2G40060.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 777 bp

ATGTCTGCCTTTGAAGACGATTCCTTCGTCATACTCAACGATGATGCGTCTGAGTCTGTTCCAGTCTCAGGCTCTTTTGACGCCACTGATTCTTTCTCAGCTTTCGACGGCTCACTCCAAGTCGAGGACTCCGTCGACGATGTTTTTGCAGCGCCGTCTTCTGACTACGGTGCTTACTCCAACGGTGACGGCATCTTCGGATCCAACGGGGATCACGACGGTCCTATCTTGCCACCACCGTCGGAGATGGAATCAGATGAGGGATTTGCTCTTAGAGAATGGAGAAGACAAAATGCAATTCAACTTGAGGAGAAGGAGAAGAGAGAAAAGGAATTGTTGAAGCAAATTATTGAGGAAGCTGATCAATACAAAGAAGAGTTTCATAAGAAGATTGAAGTAACTTGTGAAAACAACAAAGCAGCTAACAGAGAGAAGGAAAAGCTGTATCTGGAGAACCAAGAGAAGTTCTACGCGGAATCCAGCAAGAATTACTGGAAGGCAATAGCAGAGCTAGTTCCTAAAGAAGTTCCAACAATAGAGAAAAGGAGAGGAAAAAAAGAGCAACAAGATCCTAAGAAGCCAACAGTCTCTGTGATTCAAGGTCCAAAGCCCGGTAAGCCAACCGATCTAACAAGAATGAGACAAATATTGGTGAAGCTCAAACACAACCCACCTTCTCACCTGAAACTCACTTCTCAACCTCCATCGGAGGAGGCGGCTGCTCCTCCAAAGAATGTTCCCGAAACCAAGCCCACTGAGGCAGTTACTGCTGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005198 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0006810 GO:0006897 GO:0006898 GO:0008150 GO:0009504 GO:0009507 GO:0009524 GO:0009526 GO:0009536 GO:0009941 GO:0012506 GO:0016020 GO:0016192 GO:0030117 GO:0030118 GO:0030120 GO:0030125 GO:0030135 GO:0030136 GO:0030276 GO:0030659 GO:0030662 GO:0030665 GO:0031090 GO:0031410 GO:0031967 GO:0031975 GO:0031982 GO:0032050 GO:0032991 GO:0042802 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0048475 GO:0051179 GO:0051234 GO:0071944 GO:0072583 GO:0097708 GO:0098588 GO:0098657 GO:0098796 GO:0098805

KEGG Pathways

Metabolic & Signaling

ko04142 ko04144 ko04721 ko04961 ko05016 ko05100 map04142 map04144 map04721 map04961 map05016 map05100

Pfam Domains

Protein Families

Clathrin_lg_ch

Protein Analysis

258

Amino Acids

28.84

Weight (kDa)

4.9

Isoelectric Point (pI)

59.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Clathrin_lg_ch	PF01086	81 - 175	2.3e-11	Clathrin light chain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0002423)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40060
fragaria_vesca	FvH4_4g08020 FvH4_7g24260
malus_domestica	MD00G1024200.v1.1 MD00G1047100.v1.1 MD00G1047900.v1.1 MD00G1048400.v1.1 MD00G1062700.v1.1 MD01G1132200.v1.1 MD01G1150700.v1.1 MD01G1152000.v1.1 MD05G1333900.v1.1 MD07G1216800.v1.1 MD07G1219900.v1.1
prunus_persica	Prupe.2G248500_v2.0.a1
pyrus_communis	pycom01g16830 pycom01g16850 pycom01g16880 pycom07g19900 pycom11g19450
rosa_chinensis	RchiOBHm_Chr1g0369851
rosa_laevigata	RLG00000027088 RLG00000027098
rosa_multiflora	Rmu_co8474619.1_g000001 Rmu_sc0008140.1_g000010
rosa_roxburghii	Rroxscaffold_3G00232620 Rroxscaffold_4G00286940 Rroxscaffold_4G00287110 Rroxscaffold_4G00322920
rosa_rugosa	Rorug01G0352700
rosa_samantha	Rh1AG194100 Rh1AG361200 Rh1BG178100 Rh1BG324900 Rh1CG179000 Rh1CG338100 Rh1DG087000 Rh1DG207800 Rh1DG355300
rosa_wichuraiana	Rw0G015470 Rw1G031810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	135
AccII	CGCG	1 cut(s)	473
AciI	CCGC	2 cut(s)	473, 716
AclWI	GGATC	4 cut(s)	195, 208, 219, 563
AcyI	GRCGYC	1 cut(s)	81
AfiI	CCNNNNNNNGG	3 cut(s)	68, 124, 611
AgsI	TTSAA	5 cut(s)	14, 302, 340, 395, 599
AluBI	AGCT	6 cut(s)	101, 359, 422, 442, 511, 658
AluI	AGCT	6 cut(s)	101, 359, 422, 442, 511, 658
Alw26I	GTCTC	3 cut(s)	70, 592, 634
AlwI	GGATC	4 cut(s)	195, 208, 219, 563
AlwNI	CAGNNNCTG	2 cut(s)	590, 767
ApeKI	GCWGC	4 cut(s)	149, 419, 719, 770
ArsI	GACNNNNNNTTYG	6 cut(s)	8, 40, 128, 160, 179, 211
Asp700I	GAANNNNTTC	1 cut(s)	378
AspLEI	GCGC	1 cut(s)	154
AspS9I	GGNCC	2 cut(s)	221, 602
AsuC2I	CCSGG	1 cut(s)	612
AsuHPI	GGTGA	3 cut(s)	197, 664, 671
AvaII	GGWCC	2 cut(s)	221, 602
BamHI	GGATCC	1 cut(s)	200
BbsI	GAAGAC	3 cut(s)	21, 150, 292
BbvI	GCAGC	4 cut(s)	161, 431, 706, 757
BccI	CCATC	2 cut(s)	241, 712
BceAI	ACGGC	3 cut(s)	124, 139, 205
BcgI	CGANNNNNNTGC	2 cut(s)	128, 162
BclI	TGATCA	1 cut(s)	361
BcnI	CCSGG	1 cut(s)	612
BcoDI	GTCTC	3 cut(s)	70, 592, 634
BfaI	CTAG	1 cut(s)	512
BfoI	RGCGCY	1 cut(s)	155
BisI	GCNGC	5 cut(s)	150, 420, 717, 720, 771
BlsI	GCNGC	5 cut(s)	151, 421, 718, 721, 772
Bme1390I	CCNGG	1 cut(s)	612
Bme18I	GGWCC	2 cut(s)	221, 602
BmgT120I	GGNCC	2 cut(s)	221, 602
BmiI	GGNNCC	1 cut(s)	202
BmrFI	CCNGG	1 cut(s)	612
BmsI	GCATC	2 cut(s)	34, 201
BpiI	GAAGAC	3 cut(s)	21, 150, 292
BpmI	CTGGAG	1 cut(s)	470
BpuEI	CTTGAG	1 cut(s)	326
BpuMI	CCSGG	1 cut(s)	612
BsaHI	GRCGYC	1 cut(s)	81
Bsc4I	CCNNNNNNNGG	3 cut(s)	68, 124, 611
Bse1I	ACTGG	2 cut(s)	62, 497
BseLI	CCNNNNNNNGG	3 cut(s)	68, 124, 611
BseMII	CTCAG	4 cut(s)	42, 81, 111, 747
BseNI	ACTGG	2 cut(s)	62, 497
BseRI	GAGGAG	3 cut(s)	323, 714, 725
BseXI	GCAGC	4 cut(s)	161, 431, 706, 757
Bsh1236I	CGCG	1 cut(s)	473
BsiSI	CCGG	1 cut(s)	612
BslI	CCNNNNNNNGG	3 cut(s)	68, 124, 611
BsmAI	GTCTC	3 cut(s)	70, 592, 634
Bsp143I	GATC	5 cut(s)	200, 211, 361, 568, 625
BspACI	CCGC	2 cut(s)	473, 716
BspCNI	CTCAG	4 cut(s)	43, 80, 110, 748
BspFNI	CGCG	1 cut(s)	473
BspLI	GGNNCC	1 cut(s)	202
BspPI	GGATC	4 cut(s)	195, 208, 219, 563
BsrI	ACTGG	2 cut(s)	62, 497
BssMI	GATC	5 cut(s)	200, 211, 361, 568, 625
BssNI	GRCGYC	1 cut(s)	81
Bst4CI	ACNGT	5 cut(s)	170, 185, 221, 240, 586
Bst6I	CTCTTC	2 cut(s)	314, 369
BstACI	GRCGYC	1 cut(s)	81
BstAPI	GCANNNNNTGC	1 cut(s)	767
BstDEI	CTNAG	6 cut(s)	51, 67, 97, 272, 573, 756
BstFNI	CGCG	1 cut(s)	473
BstH2I	RGCGCY	1 cut(s)	155
BstHHI	GCGC	1 cut(s)	154
BstKTI	GATC	5 cut(s)	203, 214, 364, 571, 628
BstMAI	GTCTC	3 cut(s)	70, 592, 634
BstMBI	GATC	5 cut(s)	200, 211, 361, 568, 625
BstMWI	GCNNNNNNNGC	2 cut(s)	616, 767
BstSCI	CCNGG	1 cut(s)	610
BstUI	CGCG	1 cut(s)	473
BstV1I	GCAGC	4 cut(s)	161, 431, 706, 757
BstV2I	GAAGAC	3 cut(s)	21, 150, 292
BstX2I	RGATCY	2 cut(s)	200, 568
BstYI	RGATCY	2 cut(s)	200, 568
BtsIMutI	CAGTG	2 cut(s)	84, 753
CaiI	CAGNNNCTG	2 cut(s)	590, 767
CfoI	GCGC	1 cut(s)	154
Cfr13I	GGNCC	2 cut(s)	221, 602
CseI	GACGC	2 cut(s)	36, 89
DdeI	CTNAG	6 cut(s)	51, 67, 97, 272, 573, 756
DpnI	GATC	5 cut(s)	202, 213, 363, 570, 627
DpnII	GATC	5 cut(s)	200, 211, 361, 568, 625
Eam1104I	CTCTTC	2 cut(s)	314, 369
EarI	CTCTTC	2 cut(s)	314, 369
Eco47I	GGWCC	2 cut(s)	221, 602
FaiI	YATR	2 cut(s)	32, 384
FbaI	TGATCA	1 cut(s)	361
FblI	GTMKAC	1 cut(s)	135
Fnu4HI	GCNGC	5 cut(s)	150, 420, 717, 720, 771
Fsp4HI	GCNGC	5 cut(s)	150, 420, 717, 720, 771
FspBI	CTAG	1 cut(s)	512
GlaI	GCGC	1 cut(s)	153
GluI	GCNGC	5 cut(s)	150, 420, 717, 720, 771
GsuI	CTGGAG	1 cut(s)	470
HaeII	RGCGCY	1 cut(s)	155
HapII	CCGG	1 cut(s)	612
HgaI	GACGC	2 cut(s)	36, 89
HhaI	GCGC	1 cut(s)	154
Hin1I	GRCGYC	1 cut(s)	81
Hin6I	GCGC	1 cut(s)	152
HinP1I	GCGC	1 cut(s)	152
HincII	GTYRAC	1 cut(s)	136
HindII	GTYRAC	1 cut(s)	136
HinfI	GANTC	7 cut(s)	20, 53, 89, 128, 251, 476, 595
HpaII	CCGG	1 cut(s)	612
HphI	GGTGA	3 cut(s)	197, 664, 671
Hpy166II	GTNNAC	1 cut(s)	136
Hpy188I	TCNGA	6 cut(s)	52, 163, 200, 244, 256, 709
Hpy188III	TCNNGA	3 cut(s)	215, 449, 740
Hpy8I	GTNNAC	1 cut(s)	136
Hpy99I	CGWCG	5 cut(s)	110, 137, 140, 221, 244
HpyAV	CCTTC	5 cut(s)	34, 307, 427, 490, 684
HpyCH4III	ACNGT	5 cut(s)	170, 185, 221, 240, 586
HpyCH4V	TGCA	2 cut(s)	149, 296
HpyF10VI	GCNNNNNNNGC	2 cut(s)	616, 767
HpyF3I	CTNAG	6 cut(s)	51, 67, 97, 272, 573, 756
Hsp92I	GRCGYC	1 cut(s)	81
HspAI	GCGC	1 cut(s)	152
Ksp22I	TGATCA	1 cut(s)	361
Kzo9I	GATC	5 cut(s)	200, 211, 361, 568, 625
LmnI	GCTCC	1 cut(s)	727
LpnPI	CCDG	7 cut(s)	54, 75, 434, 478, 493, 625, 695
Lsp1109I	GCAGC	4 cut(s)	161, 431, 706, 757
LweI	GCATC	2 cut(s)	34, 201
MaeI	CTAG	1 cut(s)	512
MaeIII	GTNAC	3 cut(s)	185, 397, 763
MalI	GATC	5 cut(s)	202, 213, 363, 570, 627
MboI	GATC	5 cut(s)	200, 211, 361, 568, 625
MboII	GAAGA	7 cut(s)	26, 150, 187, 297, 331, 386, 400
MflI	RGATCY	2 cut(s)	200, 568
MluCI	AATT	4 cut(s)	297, 332, 345, 487
MlyI	GAGTC	2 cut(s)	62, 122
MmeI	TCCRAC	4 cut(s)	204, 222, 228, 554
MroXI	GAANNNNTTC	1 cut(s)	378
MseI	TTAA	1 cut(s)	775
MspI	CCGG	1 cut(s)	612
MspR9I	CCNGG	1 cut(s)	612
MvnI	CGCG	1 cut(s)	473
MwoI	GCNNNNNNNGC	2 cut(s)	616, 767
NciI	CCSGG	1 cut(s)	612
NdeII	GATC	5 cut(s)	200, 211, 361, 568, 625
NlaIV	GGNNCC	1 cut(s)	202
NmuCI	GTSAC	1 cut(s)	185
PcsI	WCGNNNNNNNCGW	3 cut(s)	24, 129, 213
PdmI	GAANNNNTTC	1 cut(s)	378
PfeI	GAWTC	5 cut(s)	20, 89, 251, 476, 595
PflFI	GACNNNGTC	1 cut(s)	131
PkrI	GCNGC	5 cut(s)	151, 421, 718, 721, 772
PleI	GAGTC	2 cut(s)	61, 122
PpsI	GAGTC	2 cut(s)	61, 122
PspN4I	GGNNCC	1 cut(s)	202
PspPI	GGNCC	2 cut(s)	221, 602
PstNI	CAGNNNCTG	2 cut(s)	590, 767
PsuI	RGATCY	2 cut(s)	200, 568
PsyI	GACNNNGTC	1 cut(s)	131
SalI	GTCGAC	1 cut(s)	134
SaqAI	TTAA	1 cut(s)	775
SatI	GCNGC	5 cut(s)	150, 420, 717, 720, 771
Sau3AI	GATC	5 cut(s)	200, 211, 361, 568, 625
Sau96I	GGNCC	2 cut(s)	221, 602
SchI	GAGTC	2 cut(s)	62, 122
ScrFI	CCNGG	1 cut(s)	612
SfaNI	GCATC	2 cut(s)	34, 201
SgrDI	CGTCGACG	1 cut(s)	134
SinI	GGWCC	2 cut(s)	221, 602
SmlI	CTYRAG	1 cut(s)	305
SmoI	CTYRAG	1 cut(s)	305
Sse9I	AATT	4 cut(s)	297, 332, 345, 487
SsiI	CCGC	2 cut(s)	473, 716
SspI	AATATT	1 cut(s)	648
SspMI	CTAG	1 cut(s)	512
StyD4I	CCNGG	1 cut(s)	610
TaaI	ACNGT	5 cut(s)	170, 185, 221, 240, 586
TaqI	TCGA	3 cut(s)	105, 123, 135
TasI	AATT	4 cut(s)	297, 332, 345, 487
TauI	GCSGC	1 cut(s)	719
TfiI	GAWTC	5 cut(s)	20, 89, 251, 476, 595
Tru1I	TTAA	1 cut(s)	775
Tru9I	TTAA	1 cut(s)	775
TscAI	CASTG	2 cut(s)	91, 760
TseFI	GTSAC	1 cut(s)	185
TseI	GCWGC	4 cut(s)	149, 419, 719, 770
Tsp45I	GTSAC	1 cut(s)	185
TspDTI	ATGAA	1 cut(s)	371
TspGWI	ACGGA	1 cut(s)	121
TspRI	CASTG	2 cut(s)	91, 760
Tth111I	GACNNNGTC	1 cut(s)	131
VpaK11BI	GGWCC	2 cut(s)	221, 602
XmiI	GTMKAC	1 cut(s)	135
XmnI	GAANNNNTTC	1 cut(s)	378
XspI	CTAG	1 cut(s)	512

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