Gene loci information

Transcript annotation

  • This transcript has been annotated as Filamin-A.

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_3 g1856 g1856.t4 isoform g1856.t4 13402283 13403363
chr_3 g1856 g1856.t4 exon g1856.t4.exon1 13402283 13403363
chr_3 g1856 g1856.t4 cds g1856.t4.CDS1 13402540 13403361
chr_3 g1856 g1856.t4 TTS g1856.t4 13404143 13404143
chr_3 g1856 g1856.t4 TSS g1856.t4 NA NA

Sequences

>g1856.t4 Gene=g1856 Length=1081
GAAGTCCTTTCCAATTTACTGTTGGACCATTGCGCGATACTGGTGCACATTTGGTTAAAG
CGGGCGGTCCTGGCTTAGATCATGGCGAAGTTGGTCAACCAAATGAATTCAATGTTTGGA
CTCGTGAAGCTGGTGGTGGTACGTTGGCGATTTCTGTTGAAGGTCCAAGCAAGGCCGAGA
TTGATTTTAGAGATCGTAAAGATGGATCTTGTGACGTCTCTTATATTGTATCAGAACCAG
GAGATTATCGTGTTGGCATGAAATTTAATGATCGCCATATACCTGATTCTCCATTCAAAG
TTTTCATTCAACCATCAATGATTGAAGCTCACAAGCTTGAAGTCGCACAATTTCCTGATG
GTCCCGTTCAGCCAGATAAACCAGCTCAATTTATTGTTCGTAAAAATGGTGCTGTAGGAA
ATTTAGATGCAAAAGTAGTTGCACCATCAAATACAGAAGATGATTGCTTCATTCAATTGA
TGGATCCTGACAATTACTCTGTTCGTTTCTATCCTCGCGAAAATGGCATTCATGCTATTC
ATACAAAATTCAATGGTGTTCACATCAACGGAAGTCCTTTCCGTATTAAGGTAGGCAAAG
ATGATGCTGATCCAGCTGCTGTTCATGCAAGTGGTGATGGTCTTCATGAAGGTAAAACTG
GTCAAAAGATGGACTTTATCATCGACACATGCAATGCTGGTTGCGGTTTACTATCTGTAA
CAATGGATGGACCTTCAAAAGTTTCAATGGATTGTACAGAAGTTGAAGAGGGTTACAAAG
TCCGTTATACTCCTCTCCTTCCTGGTGACTACTATTGCACTGTTAAATACAATCACATGC
ACATCGTAGGATCACCTTTCAAAATTGTTGTCGATGGCGAAAAACTTGCAGATGGTGGTG
GTCAAGAAACTACAACTGTCAACGTCGACACAGTTGTAAAAATTGCAAAGGGTGGCAAAA
ACATTGGCCCAGTCATGCCTCACTTCAATTCAGATGCATCTAAAGTCATTGCTAAGGGAT
TGGCACTTAAGAAGGCATATCTTGGTAAACAAAACTCATTCACAATTAATTGTGGTAATG
C

>g1856.t4 Gene=g1856 Length=274
MKFNDRHIPDSPFKVFIQPSMIEAHKLEVAQFPDGPVQPDKPAQFIVRKNGAVGNLDAKV
VAPSNTEDDCFIQLMDPDNYSVRFYPRENGIHAIHTKFNGVHINGSPFRIKVGKDDADPA
AVHASGDGLHEGKTGQKMDFIIDTCNAGCGLLSVTMDGPSKVSMDCTEVEEGYKVRYTPL
LPGDYYCTVKYNHMHIVGSPFKIVVDGEKLADGGGQETTTVNVDTVVKIAKGGKNIGPVM
PHFNSDASKVIAKGLALKKAYLGKQNSFTINCGN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1856.t4 Gene3D G3DSA:2.60.40.10 Immunoglobulins 20 116 0.000
8 g1856.t4 Gene3D G3DSA:2.60.40.10 Immunoglobulins 117 212 0.000
2 g1856.t4 PANTHER PTHR38537 JITTERBUG, ISOFORM N 1 273 0.000
3 g1856.t4 PANTHER PTHR38537:SF10 FILAMIN-C 1 273 0.000
1 g1856.t4 Pfam PF00630 Filamin/ABP280 repeat 117 202 0.000
12 g1856.t4 ProSiteProfiles PS50194 Filamin/ABP280 repeat profile. 1 17 8.931
11 g1856.t4 ProSiteProfiles PS50194 Filamin/ABP280 repeat profile. 40 112 20.253
10 g1856.t4 ProSiteProfiles PS50194 Filamin/ABP280 repeat profile. 114 205 26.438
7 g1856.t4 SMART SM00557 flmn_3 23 115 0.000
6 g1856.t4 SMART SM00557 flmn_3 118 208 0.000
5 g1856.t4 SUPERFAMILY SSF81296 E set domains 2 114 0.000
4 g1856.t4 SUPERFAMILY SSF81296 E set domains 118 207 0.000

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