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.t22 TTS g1280.t22 9418880 9418880
chr_3 g1280 g1280.t22 isoform g1280.t22 9418995 9421232
chr_3 g1280 g1280.t22 exon g1280.t22.exon1 9418995 9419939
chr_3 g1280 g1280.t22 cds g1280.t22.CDS1 9418995 9419936
chr_3 g1280 g1280.t22 exon g1280.t22.exon2 9420060 9420248
chr_3 g1280 g1280.t22 exon g1280.t22.exon3 9420321 9420377
chr_3 g1280 g1280.t22 exon g1280.t22.exon4 9421190 9421232
chr_3 g1280 g1280.t22 TSS g1280.t22 9421282 9421282

Sequences

>g1280.t22 Gene=g1280 Length=1234
GGTATCAAGCTACTTTACTTGTTTTAGATTTCCAAAGTCAAAGTATCTTGAATACGCAAA
ACATGTGGAAACTGTGCTGTGTTTTAATAATCGCTATAAGCGCGTTAAATTCAATAGAAT
GTGCAACAACTCAAAGTAGACCAAGTCAAGTAGTCATCCCGCAAGCATTCATAAATGCAG
GAAAAACAAAAGGTTTAGAGATTTGGAGGATTGAGGTGAAAAGCTTACATATTTATCTTT
ATATTATATTTTAATTCATATTTAACTTTAGAATTTTAAAGTTGTTGCTACAATGGAGAA
TAAAAATAAGCAACTTTCATGGGATGTTCATTTTTGGCTTGGACTTGAAACAACGCAAGA
TGAGGCAGGTGCTGCTGCAATTTACACTGTACAACTTGATGATGCTCTTGGAGGAGCACC
AGTTCAACATCGTGAAGTTCAAGAGCAAGAATCACAACTTTTCTTAGGATATTTCAAGAG
CAGTGGTGGAATTAAATATTTGCCTGGTGGTGTTGCGAGCGGATTTAGAAAAACAGAAAT
AAATGCAATTGGTGAGAAACGCCTATTTCAAGTAAAAGGAAAGAAAAATGTTCGCGTTCG
TCAAGTTGATTTGACAATTGGGTCAATGAATAAAGGCGATTGCTTTGTTCTTGATGCTGG
CAATAAAGTCTATATTTATGTTGGACCAAAAGCTAAACGAGTTGAGAAAATGAAGGCAAC
AAGTTTTGCAAATCAAGTGCGTGATGAAGACCATCATGGACGATCATCTGTTGAAATTGT
TGATGAATTTTCAAATGATGTTGATAAGGCTCATTTCTTTGAAGTGCTTGGTTCAGGTTC
AATTGAACAAGTGCCAGATGAAAGCGTTGCTGAAGATGATGAGGCATTTGAAAGAAAAGA
AGAAGCTGCAACAACTTTGAGTAAAGTTAGTGATGCATCAGGAAGCTTGAAAGTTGAACA
AATTAATCAAAAACCATTGAAACAAGAAATGCTGAATACTAACGATTGCTTTATTCTTGA
TACTGGAAGTGGTATTTATGTTTGGATTGGTAAGAAATCAACTGAACAAGAGAAAAAACA
AGCAATGTCACGTGCTCAGGGATTTATTCAAACGAAGAAATATCCTGCATGGACTAAAGT
AACAAAAATCAATGAATTCACCGAAACAACTCCATTCAAGCAATATTTCTTTACATGGCG
TGATCATGGTGCATCACATTCTCGCCTTATTTGA

>g1280.t22 Gene=g1280 Length=313
MENKNKQLSWDVHFWLGLETTQDEAGAAAIYTVQLDDALGGAPVQHREVQEQESQLFLGY
FKSSGGIKYLPGGVASGFRKTEINAIGEKRLFQVKGKKNVRVRQVDLTIGSMNKGDCFVL
DAGNKVYIYVGPKAKRVEKMKATSFANQVRDEDHHGRSSVEIVDEFSNDVDKAHFFEVLG
SGSIEQVPDESVAEDDEAFERKEEAATTLSKVSDASGSLKVEQINQKPLKQEMLNTNDCF
ILDTGSGIYVWIGKKSTEQEKKQAMSRAQGFIQTKKYPAWTKVTKINEFTETTPFKQYFF
TWRDHGASHSRLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g1280.t22 CDD cd11289 gelsolin_S2_like 88 180 0.00
20 g1280.t22 CDD cd11292 gelsolin_S3_like 204 299 0.00
16 g1280.t22 Gene3D G3DSA:3.40.20.10 Severin 1 86 0.00
18 g1280.t22 Gene3D G3DSA:3.40.20.10 Severin 87 191 0.00
17 g1280.t22 Gene3D G3DSA:3.40.20.10 Severin 200 311 0.00
4 g1280.t22 PANTHER PTHR11977 VILLIN 4 311 0.00
5 g1280.t22 PANTHER PTHR11977:SF55 GELSOLIN 4 311 0.00
9 g1280.t22 PRINTS PR00597 Gelsolin family signature 11 29 0.00
7 g1280.t22 PRINTS PR00597 Gelsolin family signature 44 64 0.00
8 g1280.t22 PRINTS PR00597 Gelsolin family signature 231 253 0.00
6 g1280.t22 PRINTS PR00597 Gelsolin family signature 260 279 0.00
2 g1280.t22 Pfam PF00626 Gelsolin repeat 11 58 0.00
3 g1280.t22 Pfam PF00626 Gelsolin repeat 99 164 0.00
1 g1280.t22 Pfam PF00626 Gelsolin repeat 227 283 0.00
13 g1280.t22 SMART SM00262 VILL_6 1 64 0.44
15 g1280.t22 SMART SM00262 VILL_6 87 182 0.00
14 g1280.t22 SMART SM00262 VILL_6 208 302 0.00
11 g1280.t22 SUPERFAMILY SSF55753 Actin depolymerizing proteins 5 99 0.00
12 g1280.t22 SUPERFAMILY SSF55753 Actin depolymerizing proteins 88 182 0.00
10 g1280.t22 SUPERFAMILY SSF55753 Actin depolymerizing proteins 203 304 0.00

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