General information for g1856.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Filamin-A.
Parent gene
- The parent gene g1856 is located on chr_3: 13403608..13404108 (+ 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 | g1856 | g1856.t3 | isoform | g1856.t3 | 13378110 | 13378926 |
| chr_3 | g1856 | g1856.t3 | exon | g1856.t3.exon1 | 13378110 | 13378316 |
| chr_3 | g1856 | g1856.t3 | cds | g1856.t3.CDS1 | 13378120 | 13378316 |
| chr_3 | g1856 | g1856.t3 | exon | g1856.t3.exon2 | 13378381 | 13378926 |
| chr_3 | g1856 | g1856.t3 | cds | g1856.t3.CDS2 | 13378381 | 13378522 |
| chr_3 | g1856 | g1856.t3 | TTS | g1856.t3 | 13379163 | 13379163 |
| chr_3 | g1856 | g1856.t3 | TSS | g1856.t3 | NA | NA |
Sequences
>g1856.t3 Gene=g1856 Length=753
CGTTTCAGTTATGTATGCTGGAAAGGAAATCGAAAATTCGCCATTTGTGATGCAATCTAC
ACCATCTGGTGATGCAAATAAATGCAAATTTGTTAATAATGCAGCAGAAAAGGTTATTTT
TGGCAAGAAAAATCGTTTAACAGTCGATGCACGTGAAGCTGGAACTGGTAATGTTACATG
CAAAATTGTAAAATCATCTAATGGACAAATCATAGATACAGAAATTGTTGAAAAAGATGG
ATTTTTTGATATCTTTTATTTACTTGCTGAGCCTGGAACATACGATGTTGATGTGAAATT
TGGTGGAAAACAAGTGCCTAATGGATTAATGAGAATGACGGTAAAATAATTTTAATCAAT
TACTCTCTTCGTTAAAATTGTTATTAACTTTTATTTGGTGTCTGTCAATCAATGAATATC
ATCTAATTATTTAGAGAAAGTTCTCTATATATACAAATATTTATTTGACCCTCGAAAGTC
TTTTTAACGTGCGTTTGTTTTCATATCTAATCTATTGTGAGGATTATTTATAAAAAACAT
GAACTTTGTAACACAAAAATATTGAAAATTCTTTCTCATTTTCTATAATTCATTGGTGAT
GGTTGTTATTTTTTTTTAAAAATAAATATCTTCTGGGTAAAATACACACAATACAAGGAT
TAAAAACAATTGTTAGCCGAATAATGGTATATATTTGCATACAGATAAAGAAAAAAAATA
TAAATATTTATTTTATTGCAGAAAAAACACAAA
>g1856.t3 Gene=g1856 Length=112
MYAGKEIENSPFVMQSTPSGDANKCKFVNNAAEKVIFGKKNRLTVDAREAGTGNVTCKIV
KSSNGQIIDTEIVEKDGFFDIFYLLAEPGTYDVDVKFGGKQVPNGLMRMTVK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1856.t3 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 2 | 18 | 0.0000000 |
| 7 | g1856.t3 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 19 | 104 | 0.0000000 |
| 2 | g1856.t3 | PANTHER | PTHR38537 | JITTERBUG, ISOFORM N | 2 | 107 | 0.0000000 |
| 3 | g1856.t3 | PANTHER | PTHR38537:SF10 | FILAMIN-C | 2 | 107 | 0.0000000 |
| 1 | g1856.t3 | Pfam | PF00630 | Filamin/ABP280 repeat | 20 | 104 | 0.0000000 |
| 8 | g1856.t3 | ProSiteProfiles | PS50194 | Filamin/ABP280 repeat profile. | 17 | 111 | 17.7870000 |
| 5 | g1856.t3 | SMART | SM00557 | flmn_3 | 21 | 112 | 0.0000054 |
| 4 | g1856.t3 | SUPERFAMILY | SSF81296 | E set domains | 2 | 111 | 0.0000000 |
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:0005515 | protein binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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. There were no conditions that were differentially expressed