Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Fatty acid-binding protein, muscle.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g10221 g10221.t2 isoform g10221.t2 8338881 8341897
chr_1 g10221 g10221.t2 exon g10221.t2.exon1 8338881 8339535
chr_1 g10221 g10221.t2 cds g10221.t2.CDS1 8339466 8339535
chr_1 g10221 g10221.t2 exon g10221.t2.exon2 8341180 8341347
chr_1 g10221 g10221.t2 cds g10221.t2.CDS2 8341180 8341347
chr_1 g10221 g10221.t2 exon g10221.t2.exon3 8341410 8341696
chr_1 g10221 g10221.t2 cds g10221.t2.CDS3 8341410 8341564
chr_1 g10221 g10221.t2 exon g10221.t2.exon4 8341804 8341897
chr_1 g10221 g10221.t2 TTS g10221.t2 8341894 8341894
chr_1 g10221 g10221.t2 TSS g10221.t2 NA NA

Sequences

>g10221.t2 Gene=g10221 Length=1204
GTGTCCACGCCTGGCATTCATCTTTTTCCTTTTAATTTAACTTTCTAATCAATGAAAATA
TTTTCTTTATTAAACTATTGAAAAAATTCTATTAATTTACTCACTCTTCTAATAGATTAC
TGATAGTGAAACTCAAAAAGATAAAATTTGAAAGGTTAATAAATCAATTTGATAAAGAAA
ATCATATTGATTGAAAAAGAGAAAAAGTAAAATGATTTAATAAAAAATTTTGATTCAATT
ATTGACCTTATAAAACTAATTTCAATGGTCAAAAAGCACTTTTGTTTATTAATCGTGACA
TAATAGCGTTAATAGTATTATTGTAAGAATAAATAAAGAATTCAAAGCTAATGTGTAAAG
AATAAGTGCCGGTCTTTTGCTCTCGCATGTTCTCTCTTAAAATTGATTAAAAAGAGAGGA
TTTTCATTGACGCGCATGTGTTCTCTCAGTAAAAATTGAATAAATTTGTTCACTCTCAGA
AGATTATGTCAAAACGTTGTTCATTCACGTTTCATTCATCGCTCATTTCGCATCGATTTT
TTTTTCTCCTTTTAAAACTTTAAAGAAAAAGAATTAAATTTCATCATGGCTTGGGAAGGC
AAAAAATACAAATTGGATAGACAAGAAAACTTCGAGGAATACATGAAGAAGATTGGTGTT
GGAATGGTTCTTCGTAAGATGGGAATGTCTGTTCATCCTACAGTTTACCTTGTCAAGGAT
GGTGATGAATACAGTTTCCATACTGACTCAACTTTCAAAAATACCGTCATGAAATTCAAG
CTCGGAGAAGAATTTGAAAATGAAACATTGGATGGACGTAAAGTACAAACTGTTATCACT
CTCGATGGTAACACAATGACTCAGGTTGAGAAAGGTGAAAAGAAATCGGTGATTGTTCGT
GAATTCAGCGACAGTGAGGTCGTAGTCACATGTGAATATGATGGCGTAGTGAGCAAACGC
TGGTACAAAGTTGTTTAAATAACTCGAAGTTACCTGCGTATTTTAATCAAGTCTGCATAC
GACCAAAAATTTATAATCAACTAAATTTCTTAAAAACATCATCGCCTGTTCTATTTAACT
ATTAAATAGAAATGAAAAAAATTGACATTTCATCATGCTTCCAACTATGATGTTTTTTTG
ATATAAATATTTGAGCACTCTATTTTCAAAATTATAAAATAAAGCATTTCTTTAGTATCG
CTAA

>g10221.t2 Gene=g10221 Length=130
MAWEGKKYKLDRQENFEEYMKKIGVGMVLRKMGMSVHPTVYLVKDGDEYSFHTDSTFKNT
VMKFKLGEEFENETLDGRKVQTVITLDGNTMTQVEKGEKKSVIVREFSDSEVVVTCEYDG
VVSKRWYKVV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g10221.t2 Gene3D G3DSA:2.40.128.20 - 2 129 6.7E-49
2 g10221.t2 PANTHER PTHR11955:SF135 FATTY ACID BINDING PROTEIN, ISOFORM C 3 128 1.8E-37
3 g10221.t2 PANTHER PTHR11955 FATTY ACID BINDING PROTEIN 3 128 1.8E-37
4 g10221.t2 PRINTS PR00178 Fatty acid-binding protein signature 4 26 4.2E-18
6 g10221.t2 PRINTS PR00178 Fatty acid-binding protein signature 63 79 4.2E-18
5 g10221.t2 PRINTS PR00178 Fatty acid-binding protein signature 109 129 4.2E-18
1 g10221.t2 Pfam PF00061 Lipocalin / cytosolic fatty-acid binding protein family 7 123 7.9E-16
8 g10221.t2 ProSitePatterns PS00214 Cytosolic fatty-acid binding proteins signature. 6 23 -
7 g10221.t2 SUPERFAMILY SSF50814 Lipocalins 2 128 3.31E-40

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0008289 lipid binding MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values