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.t5 TTS g1280.t5 9418880 9418880
chr_3 g1280 g1280.t5 isoform g1280.t5 9418995 9420247
chr_3 g1280 g1280.t5 exon g1280.t5.exon1 9418995 9419939
chr_3 g1280 g1280.t5 cds g1280.t5.CDS1 9418995 9419936
chr_3 g1280 g1280.t5 exon g1280.t5.exon2 9420003 9420077
chr_3 g1280 g1280.t5 exon g1280.t5.exon3 9420134 9420247
chr_3 g1280 g1280.t5 TSS g1280.t5 NA NA

Sequences

>g1280.t5 Gene=g1280 Length=1134
GCGTTAAATTCAATAGAATGTGCAACAACTCAAAGTAGACCAAGTCAAGTAGTCATCCCG
CAAGCATTCATAAATGCAGGAAAAACAAAAGGTTTAGAGATTTGGAGGATTGAGAATTTT
AAAGTTGTTGCTGTGCAAAAAAATACCTATGGCCAATTTCACACCGGCGATTCTTACATT
GTATTGAATACAATGGAGAATAAAAATAAGCAACTTTCATGGGATGTTCATTTTTGGCTT
GGACTTGAAACAACGCAAGATGAGGCAGGTGCTGCTGCAATTTACACTGTACAACTTGAT
GATGCTCTTGGAGGAGCACCAGTTCAACATCGTGAAGTTCAAGAGCAAGAATCACAACTT
TTCTTAGGATATTTCAAGAGCAGTGGTGGAATTAAATATTTGCCTGGTGGTGTTGCGAGC
GGATTTAGAAAAACAGAAATAAATGCAATTGGTGAGAAACGCCTATTTCAAGTAAAAGGA
AAGAAAAATGTTCGCGTTCGTCAAGTTGATTTGACAATTGGGTCAATGAATAAAGGCGAT
TGCTTTGTTCTTGATGCTGGCAATAAAGTCTATATTTATGTTGGACCAAAAGCTAAACGA
GTTGAGAAAATGAAGGCAACAAGTTTTGCAAATCAAGTGCGTGATGAAGACCATCATGGA
CGATCATCTGTTGAAATTGTTGATGAATTTTCAAATGATGTTGATAAGGCTCATTTCTTT
GAAGTGCTTGGTTCAGGTTCAATTGAACAAGTGCCAGATGAAAGCGTTGCTGAAGATGAT
GAGGCATTTGAAAGAAAAGAAGAAGCTGCAACAACTTTGAGTAAAGTTAGTGATGCATCA
GGAAGCTTGAAAGTTGAACAAATTAATCAAAAACCATTGAAACAAGAAATGCTGAATACT
AACGATTGCTTTATTCTTGATACTGGAAGTGGTATTTATGTTTGGATTGGTAAGAAATCA
ACTGAACAAGAGAAAAAACAAGCAATGTCACGTGCTCAGGGATTTATTCAAACGAAGAAA
TATCCTGCATGGACTAAAGTAACAAAAATCAATGAATTCACCGAAACAACTCCATTCAAG
CAATATTTCTTTACATGGCGTGATCATGGTGCATCACATTCTCGCCTTATTTGA

>g1280.t5 Gene=g1280 Length=313
MENKNKQLSWDVHFWLGLETTQDEAGAAAIYTVQLDDALGGAPVQHREVQEQESQLFLGY
FKSSGGIKYLPGGVASGFRKTEINAIGEKRLFQVKGKKNVRVRQVDLTIGSMNKGDCFVL
DAGNKVYIYVGPKAKRVEKMKATSFANQVRDEDHHGRSSVEIVDEFSNDVDKAHFFEVLG
SGSIEQVPDESVAEDDEAFERKEEAATTLSKVSDASGSLKVEQINQKPLKQEMLNTNDCF
ILDTGSGIYVWIGKKSTEQEKKQAMSRAQGFIQTKKYPAWTKVTKINEFTETTPFKQYFF
TWRDHGASHSRLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g1280.t5 CDD cd11289 gelsolin_S2_like 88 180 0.00
20 g1280.t5 CDD cd11292 gelsolin_S3_like 204 299 0.00
16 g1280.t5 Gene3D G3DSA:3.40.20.10 Severin 1 86 0.00
18 g1280.t5 Gene3D G3DSA:3.40.20.10 Severin 87 191 0.00
17 g1280.t5 Gene3D G3DSA:3.40.20.10 Severin 200 311 0.00
4 g1280.t5 PANTHER PTHR11977 VILLIN 4 311 0.00
5 g1280.t5 PANTHER PTHR11977:SF55 GELSOLIN 4 311 0.00
9 g1280.t5 PRINTS PR00597 Gelsolin family signature 11 29 0.00
7 g1280.t5 PRINTS PR00597 Gelsolin family signature 44 64 0.00
8 g1280.t5 PRINTS PR00597 Gelsolin family signature 231 253 0.00
6 g1280.t5 PRINTS PR00597 Gelsolin family signature 260 279 0.00
2 g1280.t5 Pfam PF00626 Gelsolin repeat 11 58 0.00
3 g1280.t5 Pfam PF00626 Gelsolin repeat 99 164 0.00
1 g1280.t5 Pfam PF00626 Gelsolin repeat 227 283 0.00
13 g1280.t5 SMART SM00262 VILL_6 1 64 0.44
15 g1280.t5 SMART SM00262 VILL_6 87 182 0.00
14 g1280.t5 SMART SM00262 VILL_6 208 302 0.00
11 g1280.t5 SUPERFAMILY SSF55753 Actin depolymerizing proteins 5 99 0.00
12 g1280.t5 SUPERFAMILY SSF55753 Actin depolymerizing proteins 88 182 0.00
10 g1280.t5 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