Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Gelsolin, cytoplasmic.

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 g1279 g1279.t5 TTS g1279.t5 9417096 9417096
chr_3 g1279 g1279.t5 isoform g1279.t5 9417233 9418690
chr_3 g1279 g1279.t5 exon g1279.t5.exon1 9417233 9417285
chr_3 g1279 g1279.t5 cds g1279.t5.CDS1 9417233 9417285
chr_3 g1279 g1279.t5 exon g1279.t5.exon2 9417359 9417422
chr_3 g1279 g1279.t5 cds g1279.t5.CDS2 9417359 9417422
chr_3 g1279 g1279.t5 exon g1279.t5.exon3 9417483 9417569
chr_3 g1279 g1279.t5 cds g1279.t5.CDS3 9417483 9417569
chr_3 g1279 g1279.t5 exon g1279.t5.exon4 9417638 9418208
chr_3 g1279 g1279.t5 cds g1279.t5.CDS4 9417638 9418208
chr_3 g1279 g1279.t5 exon g1279.t5.exon5 9418263 9418690
chr_3 g1279 g1279.t5 cds g1279.t5.CDS5 9418263 9418459
chr_3 g1279 g1279.t5 TSS g1279.t5 NA NA

Sequences

>g1279.t5 Gene=g1279 Length=1203
ATGTGGAAATTGCTGTTGACTATTTTAAGGTATTTTATCATACTTGACTCCTAAGAAAAT
ATTTTTTTTACTAAAAATTTATTTATTCTACCTAGTTTACATAAATTTATAAATTGTCAA
GAATTTAATATATCACATTTACATAAAACTAGACCGAAGGACTATAGTTTTAGTTTCATT
CCTGATAATGGAGAGGGTGAAACTGAAATTTTCAGATTTATAAATTCAAACATGTTTTCT
GTTGAATTAAAAGATTATGGCGTTTTTGATGGTGGTGATTCTTATGTCGTAAAATATAAA
TACAAAGATAAAAATTATAAAGACAGCTATATTATTTATAGTTGGAAAGGAATCAATTCC
AACAGATTTGAAAAAGTTGGAGCAATTTTCTTTTCCGTGAAAATGAAAAATGATTTGACA
AAACGAAAATTCATTATGGCTGGATTACCAACTAAGCTAAGCAATGACACAGAAGACATT
TTTGTGAAGCAAATTCAAATAGATCAAAGTTGTGAAACTCCACATTTTTTAAAAATTTTT
AAAGGCAAAACTTTATTTACTGGTATTTTTAATCAAGATTCTTATGATATTGATGGAATA
AGGCTATTTAGAATTCGTGGAACTAATGAGGGAAATGTTCGCACTACTCAAGTTGAAAAA
ATAGCTAAATCGCTTGCATCAGATGATGTTTTTATTTTAGACACACCAGCAAATACTTTT
GTTTGGTATGGTGATGGTGCAAACGACTTTGAGTACTCAACAGGACTTCTTATGAGTAAA
AGATTCTCTCAAGACCGAAATGCAATTGTTATTTATGAAGGTGAAGAGCCAGATGAATTT
TGGAATGCATTAGGAGGAAAGGATGATTATGACCATGAAATCGATCCATCATCTTCATCA
TTTGAAATACGTTTTTTTAAATGTACTAGATTTATAACACACCTTGGGGAAACTTTCATT
TTTGATGACCTTGATTCATTTTCCGATGAGATTTTAGTGATTGATGATGGTAATGAAAAT
GTGTACTTTTATATAGGAGAGAAAACTCATGAAATACAAATAAAACAATGTTTCATTGAA
ACAAAAGCTTACATTGAAACTGAACCAACTGGACGATTTAAGAATTTGGAACCAATAATT
CTTCAAAGAGCTTTCAAAAGATTATTCTCATGTAATGATATTTTTTGGGATTTACGACAT
TAA

>g1279.t5 Gene=g1279 Length=323
MFSVELKDYGVFDGGDSYVVKYKYKDKNYKDSYIIYSWKGINSNRFEKVGAIFFSVKMKN
DLTKRKFIMAGLPTKLSNDTEDIFVKQIQIDQSCETPHFLKIFKGKTLFTGIFNQDSYDI
DGIRLFRIRGTNEGNVRTTQVEKIAKSLASDDVFILDTPANTFVWYGDGANDFEYSTGLL
MSKRFSQDRNAIVIYEGEEPDEFWNALGGKDDYDHEIDPSSSSFEIRFFKCTRFITHLGE
TFIFDDLDSFSDEILVIDDGNENVYFYIGEKTHEIQIKQCFIETKAYIETEPTGRFKNLE
PIILQRAFKRLFSCNDIFWDLRH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g1279.t5 CDD cd11288 gelsolin_S5_like 121 212 0.0e+00
16 g1279.t5 Gene3D G3DSA:3.40.20.10 Severin 1 124 0.0e+00
14 g1279.t5 Gene3D G3DSA:3.40.20.10 Severin 125 216 0.0e+00
15 g1279.t5 Gene3D G3DSA:3.40.20.10 Severin 218 320 3.9e-05
2 g1279.t5 PANTHER PTHR11977 VILLIN 7 296 0.0e+00
7 g1279.t5 PRINTS PR00597 Gelsolin family signature 8 24 0.0e+00
4 g1279.t5 PRINTS PR00597 Gelsolin family signature 34 52 0.0e+00
8 g1279.t5 PRINTS PR00597 Gelsolin family signature 136 156 0.0e+00
5 g1279.t5 PRINTS PR00597 Gelsolin family signature 196 215 0.0e+00
6 g1279.t5 PRINTS PR00597 Gelsolin family signature 247 269 0.0e+00
3 g1279.t5 PRINTS PR00597 Gelsolin family signature 276 295 0.0e+00
1 g1279.t5 Pfam PF00626 Gelsolin repeat 137 204 6.6e-05
13 g1279.t5 SMART SM00262 VILL_6 2 106 4.7e-01
12 g1279.t5 SMART SM00262 VILL_6 123 210 0.0e+00
9 g1279.t5 SUPERFAMILY SSF55753 Actin depolymerizing proteins 8 132 0.0e+00
11 g1279.t5 SUPERFAMILY SSF55753 Actin depolymerizing proteins 114 219 0.0e+00
10 g1279.t5 SUPERFAMILY SSF55753 Actin depolymerizing proteins 199 310 5.6e-06

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. There were no conditions that were differentially expressed