Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi4g1v0054300
Transcript ID	LotjaGi4g1v0054300.1
Lotus japonicus genome version	Gifu v1.2
Description	Clathrin light chain; TAIR: AT2G20760.1 Clathrin light chain protein; Swiss-Prot: sp\|Q9SKU1\|CLC1_ARATH Clathrin light chain 1; TrEMBL-Plants: tr\|I3S6E9\|I3S6E9_LOTJA Clathrin light chain; Found in the gene: LotjaGi4g1v0054300
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr4:6538643..6542191) extracted from Lotus japonicus Gifu genome v1.2.

AAAGAAACAACGCAGAGTGCTCTCTCTATCTCTCTCAACTTTCAAAGCGTTTTCCTAGAGAGAGAAACTCATTTCTAGAG AGAGAGTGAAAAACCACTGAACCATGTCCTTCGCCGTCGACGACCTCAACTTCGACGCCGCAGACGACACCTTCTCCGGA TACGGAGGCTACTCCAGCTTCCCCGGCGACGATGCCCCCGTCGAACACTCAACAACGGCGGCACCAGAGTCGCCGGATAT CTTCGGCTTCAGCGATCCAAATCCGAATTACTCTCAGTCTCCCTTTGAACCAGAGCACGTAGTGGAGAACGGTGATGAAA ACGGCTACGATGATGGAGTTTTCGTCTCCGACGGGCCTGTGCTTCCGCCGCCTGGCGATATGGAGCCGGAGGAAGGTTAC GCTCTTCGGGAGTGGCGCCGGTGAGTGTTTCAGATTGCTATTCTCTCTGGTTTTTGTTTGTGCTTTGTGAATTTGTCAGA TCTTGTATGAATCTGCTTAGATCTATGGTGATTTTGCTTTCATTCATCAATTCAACGTGCTTGATTGATCCCAATGTTTG AGATTTAGTGTGATTCCATATACTCTATGATTTTTGTGTGGTGGTGACTGGTTTAGAGGGTGAATTCAGTTGTTGGATGC CTGCTTGGACTGAGCTGATTTTTTGGACTTGGTAGGATCTGTATTCTATGCACATTTTCATGGAGATGTTCTACTGACTA TTGAGTGTTCCATCTTCCATGATCATCTATTTTCCTTAGTTATACTTAGATCAAGGAAGCAATTTACTAGTAATAATCAG ATGATTGAAAAAGATTGACTAGGATTGCATAAAATCTTCGTGATCCTGAGCACATTTCTTGGAATATACGACACACATAT TCCGCGTGCTTTTTGAATTGTATAGTTGGCCGAGTCTATTTTTTCTTCCTTTAATTTTGGGATCATGAAGGTTAGCTCAA GTGGTAAGAGCTAGGGACATAAGAGTTTGGGGGGTAAAGGGTGAAGGGTCCAGGGTCCAGGGTTCGAACCCTGAGGATGA CTAATTTACTAACAACTAACATTTGCCTATAAAAAAAAATTACTTAGAAAAGTAGCTGTTTCGTGGGGTACCCTACCCCT GTCACAAACTTCATGTTGTATTTTACAATTTTGTTCACCAATTTAAATGTTTATTTTACTAATACAGAGATAAGAATATT GCAATAATTACATAACTATTTGCTTTTTGTTGTTTTTATAATGACTCGTGTTAGCTTATATTATAGTATTGATTATCTCG TTTGATTTAAGATTTGTGTTTTTTAGTAATTTTAAATTAAGTTTATATGTTCCATTACGGCTATGATGTGTCCTATATAT TTTTTTAAATCAGTCATATCTTTGTAAACGTGTCTTGACTCTTGAAATCATACCCGTGCTCTCTAGATAGTAAATATTGG ACAACTTGGTAATGTGCATATAAGCATATTCATGTTGTATTCTGCATTAAATTAAACCTTAGGTTAGGTAGTTTTACAAT GTTCTCACCCTGAATTTTAATCAATTTGCTCTTTGTACATCATGCACTGAGCACCTGATATATACAAAATGACTAATTAA TGTTGTGTTGATTCATATACTGCGGAATTCAAGCTTTCCTCTAATATCTGGTAGCCAATACCAAAATGAGGATTCTTGTG CCGATAAATGGTTCATGACTTATGCAGGCTATACTTAGGTAAAATTTCCCCTATTTTTATTATTTTTGAACTTTTCTCTA TCTTTTTGAAAAATACATTAATATTTCATCACCTACTTTCACTTCCAAGTTACTGCTGTCATAGCTTCTTAATTATGCCA AACGCCCAAACCTATTTATTTTCTGTTTGCTATCATATGCGTAAATAACATGAATTTGAAGTTGATCATGAATCAATAAA ATTAGAGGACCAGAAATGAGTTGTGGTGGCGCCTGTTTTTTTAGAACTATAGGCATCAAATGTGCTTCAGTTTGCATCTT TTAGATTTGCAATCTGTACCCAAGGCTAGAGTAGAGAAATATAGGTGGTGCATAATTGCATAAAAGATAATCAGTATAGT GTATAATTAAATGCTATTATTACAATGTATCCAAAAAAATGTTAATGTGACCAGTAATACAAACCCCTGCTTGTTTCATT TCCTGAGGCAAAATTATTCTTGAACCTAGACAGTTGGACAATAAATTTTGCAGTCTGATCTTTTGCCAACTAATATTTAA GATCAATTGCGTGTTTGCTGAACTCAGTTGTCAACAAAAATCAATATGTTATGCAGTCAAAATGCCATTCAGCTAGAGGA GAAGGAGAAAAGGGAAAAAGAAATGAGACTAAAGATTATTGAGGAAGCTGAGGATTATAAGGTGGCTTTCTATGAGAAAA GGAAGCTTAACGTTGAGTCTAACAAGGTTCAAAACAGAGAAAGGGAGAAGGTAAGATATACAGGTATCAGTGCATCACAT TACTTAGCATGTTTGGAACAACTTATTTTTTCACATAATCAATTCTGCCGCCTAGAAGCTTCTTCCCAGAATTGATTTTG GCTTCAGAATAAATTATATATGAATTTCCAAACATGCTATTATTATCTTAAAATAATTTCTTTCTTTTATTAACTCTCAG AAATGATCTTTGTTTGTGGAGCAGTTATACTTAGCCAATCAGGAGAAATTCCACAAAGAGGCTGACAAAAATTACTGGAA AGCAATTGGGGAGATCATTCCTCGTGAGGTTGCCAACATTGAGAAGAGAAGAGGCAAAAAGGATCAGGAGAAAAAGCCAT CAATTACAGTCATCCACGGCCCGAAGCCTGGCAAACCCACTGATCTTTCTAGGATGAGGCAGATATTGTTAAAGCTGAAA CACACACCACCCGCTCACATGATTCCTCCTCCTCCTCCTCCTGCACCTGCTAAAGACTCCAAGGATAAGGATGGAAAAGA AACAGCAAGTAAACCAAATGGAACTGCACCAGAAGGTGCACCTGAATCACAACCAAGGGATGCTGCCACCAATGACAGTA CTACAGATTTACCCCAGAAAGAAGCTCCTGCCACTGAGGAGCAGTCTGCTACATAGTTTCTCTCTGTCTATCATCCTTAA GCTCACAATTTTTCTCCTTCTGCTATCTGTTTCCCCTGCAGTCTTTACGGATCTTTTTGTCATGCTATTAGTTTCTATGG GTTTTTGAGTTTTCATTTTATTTCCAGCATTAAGGTTTTGTATCAATTATTAAATCTGTCATTGACTAGTATGACCTTGG AAATTAAAATGTTCATGGGTTTTAATCCCTCTAAAAATAAGAAAGAGTATTTGTTTATATTTTTACATTTATGGTTTAGG GTTCATTCCCTTTGTCAGTTAGTTTTTTTTCTTCCCATTCCAAGTTGCAATTAGGTGGATGAACAGTTTCTCGAATCTCT TCCATTCCATTGTATTTGTACTAGTGTGTTTACCGGTGACTTGCATAGGGGGATTTTATTTTTTGATTTTATCCATGATG ATTGATATTGAAGAAACAGTAGTTCCACG

Download Genomic Sequence

CDS sequence (LotjaGi4g1v0054300.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGTCCTTCGCCGTCGACGACCTCAACTTCGACGCCGCAGACGACACCTTCTCCGGATACGGAGGCTACTCCAGCTTCCC CGGCGACGATGCCCCCGTCGAACACTCAACAACGGCGGCACCAGAGTCGCCGGATATCTTCGGCTTCAGCGATCCAAATC CGAATTACTCTCAGTCTCCCTTTGAACCAGAGCACGTAGTGGAGAACGGTGATGAAAACGGCTACGATGATGGAGTTTTC GTCTCCGACGGGCCTGTGCTTCCGCCGCCTGGCGATATGGAGCCGGAGGAAGGTTACGCTCTTCGGGAGTGGCGCCGTCA AAATGCCATTCAGCTAGAGGAGAAGGAGAAAAGGGAAAAAGAAATGAGACTAAAGATTATTGAGGAAGCTGAGGATTATA AGGTGGCTTTCTATGAGAAAAGGAAGCTTAACGTTGAGTCTAACAAGGTTCAAAACAGAGAAAGGGAGAAGTTATACTTA GCCAATCAGGAGAAATTCCACAAAGAGGCTGACAAAAATTACTGGAAAGCAATTGGGGAGATCATTCCTCGTGAGGTTGC CAACATTGAGAAGAGAAGAGGCAAAAAGGATCAGGAGAAAAAGCCATCAATTACAGTCATCCACGGCCCGAAGCCTGGCA AACCCACTGATCTTTCTAGGATGAGGCAGATATTGTTAAAGCTGAAACACACACCACCCGCTCACATGATTCCTCCTCCT CCTCCTCCTGCACCTGCTAAAGACTCCAAGGATAAGGATGGAAAAGAAACAGCAAGTAAACCAAATGGAACTGCACCAGA AGGTGCACCTGAATCACAACCAAGGGATGCTGCCACCAATGACAGTACTACAGATTTACCCCAGAAAGAAGCTCCTGCCA CTGAGGAGCAGTCTGCTACATAG

Download CDS Sequence

Protein sequence (LotjaGi4g1v0054300.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MSFAVDDLNFDAADDTFSGYGGYSSFPGDDAPVEHSTTAAPESPDIFGFSDPNPNYSQSPFEPEHVVENGDENGYDDGVF VSDGPVLPPPGDMEPEEGYALREWRRQNAIQLEEKEKREKEMRLKIIEEAEDYKVAFYEKRKLNVESNKVQNREREKLYL ANQEKFHKEADKNYWKAIGEIIPREVANIEKRRGKKDQEKKPSITVIHGPKPGKPTDLSRMRQILLKLKHTPPAHMIPPP PPPAPAKDSKDKDGKETASKPNGTAPEGAPESQPRDAATNDSTTDLPQKEAPATEEQSAT

Download Protein Sequence

Domain prediction

Data for domain prediction are obtained with InterProScan, and merged with InterPro data obtained from the EB-eye REST service.

Prediction algorithm	Identifier	Start	End	Length	E-value	InterPro ID
PANTHER	PTHR10639:SF25 View details on PTHR10639:SF25 Search for proteins/transripts with this domain View external data on PTHR10639:SF25	2	300	299	3.3E-161	–
PANTHER	PTHR10639 View details on PTHR10639 Search for proteins/transripts with this domain View external data on PTHR10639	2	300	299	3.3E-161	IPR000996 Show description in modal box View details on IPR000996 Search for proteins/transripts with this domain View on EBI InterPro Service
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	12	75	64	-	–
Pfam	PF01086 View details on PF01086 Search for proteins/transripts with this domain View external data on PF01086	93	232	140	1.2E-8	IPR000996 Show description in modal box View details on IPR000996 Search for proteins/transripts with this domain View on EBI InterPro Service
Coils	Coil View details on Coil Search for proteins/transripts with this domain	101	132	32	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	189	204	16	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	189	300	112	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	275	300	26	-	–

Gene function (GO predictions)

GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on April 27, 2020, while the GO metadata was last updated on April 27, 2020.

GO term	Namespace	Name	Definition	Relationships
GO:0005198 View details of GO:0005198 AmiGO InterPro QuickGO	Molecular function	Structural molecule activity	The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.	Subterm of View details of GO:0003674
GO:0006886 View details of GO:0006886 AmiGO InterPro QuickGO	Biological process	Intracellular protein transport	The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.	Subterm of View details of GO:0015031 View details of GO:0046907 Part of View details of GO:0034613
GO:0016192 View details of GO:0016192 AmiGO InterPro QuickGO	Biological process	Vesicle-mediated transport	A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.	Subterm of View details of GO:0006810
GO:0030130 View details of GO:0030130 AmiGO InterPro QuickGO	Cellular component	Clathrin coat of trans-Golgi network vesicle	A clathrin coat found on a vesicle of the trans-Golgi network.	Subterm of View details of GO:0030125 View details of GO:0044431 Part of View details of GO:0012510
GO:0030132 View details of GO:0030132 AmiGO InterPro QuickGO	Cellular component	Clathrin coat of coated pit	The coat found on coated pits and the coated vesicles derived from coated pits; comprises clathrin and the AP-2 adaptor complex.	Subterm of View details of GO:0030118 View details of GO:0098797 Part of View details of GO:0005905

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Expression data

Expression pattern

Expression pattern of LotjaGi4g1v0054300.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi4g1v0054300.1