General information for g3488.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Fatty acid-binding protein, muscle.
Parent gene
- The parent gene g3488 is located on chr_3: 25949869..25950546 (- strand)
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_3 | g3488 | g3488.t1 | TTS | g3488.t1 | 25949767 | 25949767 |
| chr_3 | g3488 | g3488.t1 | isoform | g3488.t1 | 25949869 | 25950546 |
| chr_3 | g3488 | g3488.t1 | exon | g3488.t1.exon1 | 25949869 | 25950188 |
| chr_3 | g3488 | g3488.t1 | cds | g3488.t1.CDS1 | 25949869 | 25950188 |
| chr_3 | g3488 | g3488.t1 | exon | g3488.t1.exon2 | 25950477 | 25950546 |
| chr_3 | g3488 | g3488.t1 | cds | g3488.t1.CDS2 | 25950477 | 25950546 |
| chr_3 | g3488 | g3488.t1 | TSS | g3488.t1 | 25950610 | 25950610 |
Sequences
>g3488.t1 Gene=g3488 Length=390
ATGGCATGGGTTGGCAAAAAATATACTCTTTACAAGTCGGAGAACTTTGAGGAATACATG
AAAGCACTTGGTGTTGGCTTTTTCCTTCGTAAAATTGGCAATAACACAACACCAACAATC
TGGTTAGAAAAAAAAGGTGACTGGTACGAATTTCACACTGAATCAACATTCAAGACAACA
ATTTTGCGCTTCAAACTTGGTGAAGAATTCGATGAAGAGACATTAGATGGACGTGAAGTT
AAGACAATTATGACATTAGATGGAAACACATTAACACAAACACAGAAGACTGAAAAAAAA
TCAGTAATTACTCGTGAATTCACTGAAACTGAATGTAAAACTGTTTGCATTTATGGCGAT
GTAGTCAGCACACGCTGGTATAGAGTTTAA
>g3488.t1 Gene=g3488 Length=129
MAWVGKKYTLYKSENFEEYMKALGVGFFLRKIGNNTTPTIWLEKKGDWYEFHTESTFKTT
ILRFKLGEEFDEETLDGREVKTIMTLDGNTLTQTQKTEKKSVITREFTETECKTVCIYGD
VVSTRWYRV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3488.t1 | Gene3D | G3DSA:2.40.128.20 | - | 1 | 129 | 1.3E-46 |
| 2 | g3488.t1 | PANTHER | PTHR11955:SF135 | FATTY ACID BINDING PROTEIN, ISOFORM C | 3 | 127 | 4.8E-34 |
| 3 | g3488.t1 | PANTHER | PTHR11955 | FATTY ACID BINDING PROTEIN | 3 | 127 | 4.8E-34 |
| 4 | g3488.t1 | PRINTS | PR00178 | Fatty acid-binding protein signature | 4 | 26 | 9.9E-16 |
| 6 | g3488.t1 | PRINTS | PR00178 | Fatty acid-binding protein signature | 63 | 79 | 9.9E-16 |
| 5 | g3488.t1 | PRINTS | PR00178 | Fatty acid-binding protein signature | 109 | 129 | 9.9E-16 |
| 1 | g3488.t1 | Pfam | PF00061 | Lipocalin / cytosolic fatty-acid binding protein family | 7 | 107 | 3.1E-16 |
| 8 | g3488.t1 | ProSitePatterns | PS00214 | Cytosolic fatty-acid binding proteins signature. | 6 | 23 | - |
| 7 | g3488.t1 | SUPERFAMILY | SSF50814 | Lipocalins | 2 | 128 | 1.02E-37 |
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
- This transcript has been annotated with K08752 (fatty acid-binding protein 3, muscle and heart)
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.
