LXL04_021929 | RubberDandelionOmics

Gene overview

LXL04_021929

Reference: OH-1004 Chr: Chr04 Coordinates: 140584671-140585791 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

897 bp · LXL04_021929|LXL04_021929|OH1004|cDNA

TCTACCCATAGGGCCCTCTTTCCTTCCCCGTTTTCTTTCCATATATACCCCTTTCACATTCTTCATTCTCTTCACACTTTCCAACTTCTTCTCTTTTATCTCTCTGTTTCTTCCTCAAAAATGGAGCTCAAGGATGTTTGCTGGTTCTTTATAATAACCGCATTCTTCACCGCCGTCAATGCTCGTATCCCCGGAGTTTACACCGGCGGCCAGTGGGAATCCGCCCACGCCACCTTCTACGGTGGCAGTGACGCATCCGG...

CDS

Download CDS FASTA

777 bp · LXL04_021929|LXL04_021929|OH1004|CDS

ATGGAGCTCAAGGATGTTTGCTGGTTCTTTATAATAACCGCATTCTTCACCGCCGTCAATGCTCGTATCCCCGGAGTTTACACCGGCGGCCAGTGGGAATCCGCCCACGCCACCTTCTACGGTGGCAGTGACGCATCCGGCACCATGGGTGGAGCATGTGGGTATGGGAATTTGTACAGCCAAGGGTACGGCGTAAACACGGCGGCGCTGAGCACGGCGTTGTTCAACAATGGGTTCAGCTGCGGCGCTTGTTTTGAGAT...

Protein

Download Protein FASTA

258 aa · LXL04_021929|LXL04_021929|OH1004|PROTEIN

MELKDVCWFFIITAFFTAVNARIPGVYTGGQWESAHATFYGGSDASGTMGGACGYGNLYSQGYGVNTAALSTALFNNGFSCGACFEIKCTDDPQWCHPGNPSIFITATNFCPPNFAQPSDNGGWCNPPRPHFDLAMPMFLKIAEYRAGIVPVNYRRVPCRKQGGIRFTINGFRYFNLILISNVAGAGDITAAWVKGSNTDWMSLSRNWGQNWQSNSQLIGQSLSFRVRSSDGRSSASKNIVPSNWQFGQTFTGKNFRV

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_021929`
TK1151 ID	TkA05G432030
OH-1004 ID	LXL04_021929
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 86.577 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_021929

Location Chr04:140584671-140585791 (+)

Description Similar to EXPA3: Expansin-A3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g37640`	Causes loosening and extension of plant cell walls by disrupting non-covalent bonding between cellulose microfibrils and matrix glucans.	No verified direct reference in this release
`At2g39700`	Causes loosening and extension of plant cell walls by disrupting non-covalent bonding between cellulose microfibrils and matrix glucans.	No verified direct reference in this release
`At5g02260`	Causes loosening and extension of plant cell walls by disrupting non-covalent bonding between cellulose microfibrils and matrix glucans.	No verified direct reference in this release
`At2g28950`	Causes loosening and extension of plant cell walls by disrupting non-covalent bonding between cellulose microfibrils and matrix glucans.	No verified direct reference in this release
`At3g55500`	Causes loosening and extension of plant cell walls by disrupting non-covalent bonding between cellulose microfibrils and matrix glucans.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021929 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006949 syncytium formation Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0009828 plant-type cell wall loosening Biological Process

GO:0010114 response to red light Biological Process

GO:0005576 extracellular region Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0016020 membrane Cellular Component

KEGG gene cross-reference

ath:AT2G28950

ath:AT2G37640

ath:AT2G39700

ath:AT3G55500

ath:AT5G02260

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Extracellular0.811

Rank 1 · LXL04_021929 · OH-1004

Cytoplasm0.073

Rank 2 · LXL04_021929 · OH-1004

Lysosome / Vacuole0.044

Rank 3 · LXL04_021929 · OH-1004

Endoplasmic reticulum0.030

Rank 4 · LXL04_021929 · OH-1004

Cell membrane0.020

Rank 5 · LXL04_021929 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF22514.3EXPB1_D137-160 aa

PF29515.1Expansin_N46-89 aa

PF03330.25DPBB_167-154 aa

PF01357.28Expansin_C165-242 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021929	`PF22514.3`	EXPB1_D1	37	160	8.6e-09	36.6
LXL04_021929	`PF29515.1`	Expansin_N	46	89	7.7e-07	30.0
LXL04_021929	`PF03330.25`	DPBB_1	67	154	2.7e-21	76.3
LXL04_021929	`PF01357.28`	Expansin_C	165	242	3.5e-28	98.3

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

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Protein	Organism	Description	Identity	Database	Confidence
`O80932`	Arabidopsis thaliana	Expansin-A3	80.952%	Swiss-Prot	strong database homology
`O48818`	Arabidopsis thaliana	Expansin-A4	80.400%	Swiss-Prot	strong database homology
`Q9LZ99`	Arabidopsis thaliana	Expansin-A9	79.116%	Swiss-Prot	strong database homology
`Q38865`	Arabidopsis thaliana	Expansin-A6	82.258%	Swiss-Prot	strong database homology
`Q9M2S9`	Arabidopsis thaliana	Expansin-A16	78.400%	Swiss-Prot	strong database homology

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