Gene loci information

Transcript annotation

  • This transcript has been annotated as Gelsolin.

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 g1280 g1280.t27 TTS g1280.t27 9418880 9418880
chr_3 g1280 g1280.t27 isoform g1280.t27 9419342 9421267
chr_3 g1280 g1280.t27 exon g1280.t27.exon1 9419342 9419939
chr_3 g1280 g1280.t27 cds g1280.t27.CDS1 9419343 9419936
chr_3 g1280 g1280.t27 exon g1280.t27.exon2 9420003 9420077
chr_3 g1280 g1280.t27 exon g1280.t27.exon3 9420134 9420248
chr_3 g1280 g1280.t27 exon g1280.t27.exon4 9421190 9421267
chr_3 g1280 g1280.t27 TSS g1280.t27 9421282 9421282

Sequences

>g1280.t27 Gene=g1280 Length=866
TCTGTAGTGTAAAAGTGAAAATTAATAAAAACGCCGGTATCAAGCTACTTTACTTGTTTT
AGATTTCCAAAGTCAAAGCGCGTTAAATTCAATAGAATGTGCAACAACTCAAAGTAGACC
AAGTCAAGTAGTCATCCCGCAAGCATTCATAAATGCAGGAAAAACAAAAGGTTTAGAGAT
TTGGAGGATTGAGAATTTTAAAGTTGTTGCTGTGCAAAAAAATACCTATGGCCAATTTCA
CACCGGCGATTCTTACATTGTATTGAATACAATGGAGAATAAAAATAAGCAACTTTCATG
GGATGTTCATTTTTGGCTTGGACTTGAAACAACGCAAGATGAGGCAGGTGCTGCTGCAAT
TTACACTGTACAACTTGATGATGCTCTTGGAGGAGCACCAGTTCAACATCGTGAAGTTCA
AGAGCAAGAATCACAACTTTTCTTAGGATATTTCAAGAGCAGTGGTGGAATTAAATATTT
GCCTGGTGGTGTTGCGAGCGGATTTAGAAAAACAGAAATAAATGCAATTGGTGAGAAACG
CCTATTTCAAGTAAAAGGAAAGAAAAATGTTCGCGTTCGTCAAGTTGATTTGACAATTGG
GTCAATGAATAAAGGCGATTGCTTTGTTCTTGATGCTGGCAATAAAGTCTATATTTATGT
TGGACCAAAAGCTAAACGAGTTGAGAAAATGAAGGCAACAAGTTTTGCAAATCAAGTGCG
TGATGAAGACCATCATGGACGATCATCTGTTGAAATTGTTGATGAATTTTCAAATGATGT
TGATAAGGCTCATTTCTTTGAAGTGCTTGGTTCAGGTTCAATTGAACAAGTGCCAGATGA
AAGCGTTGCTGAAGATGATGAGGCAT

>g1280.t27 Gene=g1280 Length=198
MENKNKQLSWDVHFWLGLETTQDEAGAAAIYTVQLDDALGGAPVQHREVQEQESQLFLGY
FKSSGGIKYLPGGVASGFRKTEINAIGEKRLFQVKGKKNVRVRQVDLTIGSMNKGDCFVL
DAGNKVYIYVGPKAKRVEKMKATSFANQVRDEDHHGRSSVEIVDEFSNDVDKAHFFEVLG
SGSIEQVPDESVAEDDEA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g1280.t27 CDD cd11289 gelsolin_S2_like 88 180 0.0e+00
12 g1280.t27 Gene3D G3DSA:3.40.20.10 Severin 1 86 0.0e+00
13 g1280.t27 Gene3D G3DSA:3.40.20.10 Severin 87 191 0.0e+00
3 g1280.t27 PANTHER PTHR11977 VILLIN 4 198 0.0e+00
4 g1280.t27 PANTHER PTHR11977:SF55 GELSOLIN 4 198 0.0e+00
7 g1280.t27 PRINTS PR00597 Gelsolin family signature 11 29 2.0e-07
6 g1280.t27 PRINTS PR00597 Gelsolin family signature 44 64 2.0e-07
5 g1280.t27 PRINTS PR00597 Gelsolin family signature 100 120 2.0e-07
1 g1280.t27 Pfam PF00626 Gelsolin repeat 11 58 0.0e+00
2 g1280.t27 Pfam PF00626 Gelsolin repeat 99 164 0.0e+00
10 g1280.t27 SMART SM00262 VILL_6 1 64 4.4e-01
11 g1280.t27 SMART SM00262 VILL_6 87 182 0.0e+00
8 g1280.t27 SUPERFAMILY SSF55753 Actin depolymerizing proteins 5 99 0.0e+00
9 g1280.t27 SUPERFAMILY SSF55753 Actin depolymerizing proteins 88 182 0.0e+00

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:0051015 actin filament 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.

Raw TPM values