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 g1278 g1278.t18 isoform g1278.t18 9413810 9414565
chr_3 g1278 g1278.t18 exon g1278.t18.exon1 9413810 9414565
chr_3 g1278 g1278.t18 cds g1278.t18.CDS1 9413812 9414564
chr_3 g1278 g1278.t18 TSS g1278.t18 NA NA
chr_3 g1278 g1278.t18 TTS g1278.t18 NA NA

Sequences

>g1278.t18 Gene=g1278 Length=756
GATGGAAAGTAAGAGTAGAGCACTTTCATGGGATGTTCATTTTTGGCTTGGACTTGAAAC
AACGCAAGATGAGGCAGGTGCTGCAGCAATTTTTACTGTCCAACTTGATGATGCTCTTGG
CGGAGCACCAATTCAACATCGTGAAGTTCAAGAACATGAGTCACAACTTTTTCTAAATTA
TTTCAAGAAAAATGGCATTCGTTATATGCCTGGTGGTGTTGCGAGCGGTTTCAACAATGT
TGAAATAAATGCCGCTGGTGAAAAACGTTTATTCCAAGTGAAAGGAAAGAAAAATATTCG
CGTGCGTCAAGTTGCTCTCTCGGTTAATTCAATGAATAAAGGCGATTGCTTTATTCTCGA
TGCTGGTGATGAGATTTTTGTTTATGTCGGTGCTAAAGCAAAGCGAGCAGAAAAAATTAA
AGCAATTAGTGCTGCACATCAAATTCGTGATCAAGACCATAATGGACGCGCTTCAATTGA
AATTATTGATGAATTCTCTAGTGAACACGATGTTCATAACTTTTTCAAAGTTCTTGGTTC
AGGCTCACCTGATGAAGTGACAGATGAAAGCGAAGATGATGAAGCATTTGAAAGAAGTCA
AGAAAGTGAAACAACTCTTTATACTGTCAGTGATGCATCAGGAAAATTGACAATTGAACC
AATCGCTCAAAAACCACTTAGACAAGAAATGTTGAATACTAACGATTGCTTTATTCTCGA
TACTGGTCATGGAATTTTCGTTTGGGTTGGAAAAGG

>g1278.t18 Gene=g1278 Length=251
MESKSRALSWDVHFWLGLETTQDEAGAAAIFTVQLDDALGGAPIQHREVQEHESQLFLNY
FKKNGIRYMPGGVASGFNNVEINAAGEKRLFQVKGKKNIRVRQVALSVNSMNKGDCFILD
AGDEIFVYVGAKAKRAEKIKAISAAHQIRDQDHNGRASIEIIDEFSSEHDVHNFFKVLGS
GSPDEVTDESEDDEAFERSQESETTLYTVSDASGKLTIEPIAQKPLRQEMLNTNDCFILD
TGHGIFVWVGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g1278.t18 CDD cd11289 gelsolin_S2_like 87 179 0.0e+00
15 g1278.t18 Gene3D G3DSA:3.40.20.10 Severin 1 80 0.0e+00
16 g1278.t18 Gene3D G3DSA:3.40.20.10 Severin 81 196 0.0e+00
17 g1278.t18 Gene3D G3DSA:3.40.20.10 Severin 197 251 0.0e+00
4 g1278.t18 PANTHER PTHR11977 VILLIN 5 251 0.0e+00
5 g1278.t18 PANTHER PTHR11977:SF55 GELSOLIN 5 251 0.0e+00
8 g1278.t18 PRINTS PR00597 Gelsolin family signature 11 29 0.0e+00
7 g1278.t18 PRINTS PR00597 Gelsolin family signature 44 64 0.0e+00
9 g1278.t18 PRINTS PR00597 Gelsolin family signature 99 119 0.0e+00
6 g1278.t18 PRINTS PR00597 Gelsolin family signature 228 250 0.0e+00
2 g1278.t18 Pfam PF00626 Gelsolin repeat 11 58 0.0e+00
3 g1278.t18 Pfam PF00626 Gelsolin repeat 98 163 0.0e+00
1 g1278.t18 Pfam PF00626 Gelsolin repeat 224 251 5.0e-07
13 g1278.t18 SMART SM00262 VILL_6 1 64 3.6e-01
14 g1278.t18 SMART SM00262 VILL_6 86 181 0.0e+00
12 g1278.t18 SUPERFAMILY SSF55753 Actin depolymerizing proteins 8 98 0.0e+00
11 g1278.t18 SUPERFAMILY SSF55753 Actin depolymerizing proteins 82 166 0.0e+00
10 g1278.t18 SUPERFAMILY SSF55753 Actin depolymerizing proteins 197 251 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