General information for g1854.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Filamin-A.
Parent gene
- The parent gene g1854 is located on chr_3: 13366472..13372997 (+ 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 | g1854 | g1854.t3 | isoform | g1854.t3 | 13366472 | 13371922 |
| chr_3 | g1854 | g1854.t3 | exon | g1854.t3.exon1 | 13366472 | 13366531 |
| chr_3 | g1854 | g1854.t3 | exon | g1854.t3.exon2 | 13369495 | 13369849 |
| chr_3 | g1854 | g1854.t3 | exon | g1854.t3.exon3 | 13369917 | 13370069 |
| chr_3 | g1854 | g1854.t3 | exon | g1854.t3.exon4 | 13370131 | 13370414 |
| chr_3 | g1854 | g1854.t3 | exon | g1854.t3.exon5 | 13371031 | 13371285 |
| chr_3 | g1854 | g1854.t3 | cds | g1854.t3.CDS1 | 13371230 | 13371285 |
| chr_3 | g1854 | g1854.t3 | exon | g1854.t3.exon6 | 13371339 | 13371922 |
| chr_3 | g1854 | g1854.t3 | cds | g1854.t3.CDS2 | 13371339 | 13371921 |
| chr_3 | g1854 | g1854.t3 | TSS | g1854.t3 | NA | NA |
| chr_3 | g1854 | g1854.t3 | TTS | g1854.t3 | NA | NA |
Sequences
>g1854.t3 Gene=g1854 Length=1691
ATGGCACAACCACAAGCGTTAGGCGAGTTTCTTCAACAGAATCAAACTATTGCGCCAAGA
GATTATTGCGATCAAGAAGAAGAAATGATTGAAGCTGAACGTGATTTGGCAGAAGATGCA
GAGTGGAAGCGCATCCAACAAAATACTTTTACGCGATGGGCCAATGAACATTTGAAGATC
ATCGACAAGACTATAATGAGCTTGGAAACTGATTTATCAGATGGCCTCGCTTTAATTGCT
CTCATCGAAGTACTTTCACAAAAGAAAATGAGCAAACACAATAAACGTCCAACATTTCGA
TCCCAAAAATTGGAAAATGTCTCTGTCGCACTTAAATTTCTTGAACGTGAAGGAATCAAG
ATTATCAATATCGACTCAACTGACATTGTTGATTGCAAACTGAAATTGATTCTCGGTCTC
ATTTGGCTCCTAATTTTGCACTACTCAATCTCTATGCCAATTTGGGATACTGAGGTCGAT
CCAAATGATAAGCAAACTCCAAAGCAACGTTTGCTTAATTGGGTCAAAAATCGTGTACCC
GATTTACCAATTCATAATTTTACTACAGATTGGAATGATGGTAAAGCCATTGGTGCTCTT
GTTGATAACGTTGCTCCAGGTTTATGTCCAGATTGGGCATCATGGGATCCTAAAGATGCA
CTTCAAAATGCTACTGAAGCCATGGGATTGGCTGATGACTGGCTTGGTGTTCGTCAATTG
ATCAAGCCTGATGAAATGACTAATCCAAATATTGATGAGCAATCAATGATGACATATTTG
TCACAATATCCAAGTGCAAAACTCAAACCAGGTGCTCCACTTCGTCAACCAACAAATCCA
AACAGGTAAGCTAGTTCGCTGCTACGGTCCAGGCATTGAACCCTCAGGTCCTATCGTTAA
TGCACCAGCCAATTTTACAGTTGAAACATTTTCAGCTGGAAAAGGAAATGTTGAAGTTAC
TGTATTGAATCCCAACGGACTCCCTGAACAGGTTGATTGTCGTTTCAATAATGATAAAGC
ATTGACTTATTCTGTCTCATATATTCCAAAAATGGAAGGAGTTCATAAAGTCATTGTTAA
ATTTAATGGACGTGATGTTCCTAAAAGTCCATTTGATGTTAAAGTTGAAGGCGTTGCTGG
TGATGCAGAAAAGGTCACAGCAAGTGGTCCAGGATTACAACCAGATGGTGTTATGGTTAA
GAAGCCAACTTATTTCGATATTCATACAAAAGATGCAGGCAAGGGAGTACCCGAAGTTAT
TATTTTGGATCCGTCAGGTCACAAAACTTCTGTCGCTGCCAAAGTTCGTCAAATTGAAAA
CAATTTGTGGCGTTGTGATTATACACCTGCAGCTGTTGGTTTGCATTCTATTAATGTTTT
CTATGCTGGAAAAGCTATCAAGAATAGTCCATTTGGTGTTCGTGTTTCTCCAACATCTGA
TTCAAAGAAAGTTCGTGCATTTGGTCGTGGATTACAGCCTACCGGTGTCAGAGTTGGTGA
TGTTGCTGATTTTAGAATTTCAACCGAAGGTGCAGGAGAAGGTGTTCCTCATGTTCAAAT
TATTGGACCTGGCGGTCAACCTACTCCATTTGAATTGAAAGCAATCAACAATTCAACATT
TGATGGCAATTATAAACCAACAAAAGAAGGAAGATATCGTGTCATGATTACTTTTGCTGG
ACAAGAAATTC
>g1854.t3 Gene=g1854 Length=213
MEGVHKVIVKFNGRDVPKSPFDVKVEGVAGDAEKVTASGPGLQPDGVMVKKPTYFDIHTK
DAGKGVPEVIILDPSGHKTSVAAKVRQIENNLWRCDYTPAAVGLHSINVFYAGKAIKNSP
FGVRVSPTSDSKKVRAFGRGLQPTGVRVGDVADFRISTEGAGEGVPHVQIIGPGGQPTPF
ELKAINNSTFDGNYKPTKEGRYRVMITFAGQEI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1854.t3 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 1 | 26 | 0.0000016 |
| 9 | g1854.t3 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 27 | 127 | 0.0000000 |
| 11 | g1854.t3 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 128 | 213 | 0.0000000 |
| 3 | g1854.t3 | PANTHER | PTHR38537 | JITTERBUG, ISOFORM N | 1 | 213 | 0.0000000 |
| 4 | g1854.t3 | PANTHER | PTHR38537:SF10 | FILAMIN-C | 1 | 213 | 0.0000000 |
| 2 | g1854.t3 | Pfam | PF00630 | Filamin/ABP280 repeat | 30 | 121 | 0.0000000 |
| 1 | g1854.t3 | Pfam | PF00630 | Filamin/ABP280 repeat | 129 | 213 | 0.0000000 |
| 14 | g1854.t3 | ProSiteProfiles | PS50194 | Filamin/ABP280 repeat profile. | 1 | 25 | 12.0130000 |
| 13 | g1854.t3 | ProSiteProfiles | PS50194 | Filamin/ABP280 repeat profile. | 27 | 125 | 27.4040000 |
| 12 | g1854.t3 | ProSiteProfiles | PS50194 | Filamin/ABP280 repeat profile. | 126 | 213 | 23.8900000 |
| 7 | g1854.t3 | SMART | SM00557 | flmn_3 | 31 | 128 | 0.0000000 |
| 8 | g1854.t3 | SMART | SM00557 | flmn_3 | 130 | 213 | 0.0000000 |
| 6 | g1854.t3 | SUPERFAMILY | SSF81296 | E set domains | 9 | 129 | 0.0000000 |
| 5 | g1854.t3 | SUPERFAMILY | SSF81296 | E set domains | 108 | 213 | 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