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.t18 TTS g1280.t18 9418880 9418880
chr_3 g1280 g1280.t18 isoform g1280.t18 9418995 9421224
chr_3 g1280 g1280.t18 exon g1280.t18.exon1 9418995 9419844
chr_3 g1280 g1280.t18 cds g1280.t18.CDS1 9418995 9419603
chr_3 g1280 g1280.t18 exon g1280.t18.exon2 9420003 9420077
chr_3 g1280 g1280.t18 exon g1280.t18.exon3 9420134 9420248
chr_3 g1280 g1280.t18 exon g1280.t18.exon4 9420321 9420377
chr_3 g1280 g1280.t18 exon g1280.t18.exon5 9421197 9421224
chr_3 g1280 g1280.t18 TSS g1280.t18 9421282 9421282

Sequences

>g1280.t18 Gene=g1280 Length=1125
GCTACTTTACTTGTTTTAGATTTCCAAATATCTTGAATACGCAAAACATGTGGAAACTGT
GCTGTGTTTTAATAATCGCTATAAGCGCGTTAAATTCAATAGAATGTGCAACAACTCAAA
GTAGACCAAGTCAAGTAGTCATCCCGCAAGCATTCATAAATGCAGGAAAAACAAAAGGTT
TAGAGATTTGGAGGATTGAGAATTTTAAAGTTGTTGCTGTGCAAAAAAATACCTATGGCC
AATTTCACACCGGCGATTCTTACATTGTATTGAATCACTGTACAACTTGATGATGCTCTT
GGAGGAGCACCAGTTCAACATCGTGAAGTTCAAGAGCAAGAATCACAACTTTTCTTAGGA
TATTTCAAGAGCAGTGGTGGAATTAAATATTTGCCTGGTGGTGTTGCGAGCGGATTTAGA
AAAACAGAAATAAATGCAATTGGTGAGAAACGCCTATTTCAAGTAAAAGGAAAGAAAAAT
GTTCGCGTTCGTCAAGTTGATTTGACAATTGGGTCAATGAATAAAGGCGATTGCTTTGTT
CTTGATGCTGGCAATAAAGTCTATATTTATGTTGGACCAAAAGCTAAACGAGTTGAGAAA
ATGAAGGCAACAAGTTTTGCAAATCAAGTGCGTGATGAAGACCATCATGGACGATCATCT
GTTGAAATTGTTGATGAATTTTCAAATGATGTTGATAAGGCTCATTTCTTTGAAGTGCTT
GGTTCAGGTTCAATTGAACAAGTGCCAGATGAAAGCGTTGCTGAAGATGATGAGGCATTT
GAAAGAAAAGAAGAAGCTGCAACAACTTTGAGTAAAGTTAGTGATGCATCAGGAAGCTTG
AAAGTTGAACAAATTAATCAAAAACCATTGAAACAAGAAATGCTGAATACTAACGATTGC
TTTATTCTTGATACTGGAAGTGGTATTTATGTTTGGATTGGTAAGAAATCAACTGAACAA
GAGAAAAAACAAGCAATGTCACGTGCTCAGGGATTTATTCAAACGAAGAAATATCCTGCA
TGGACTAAAGTAACAAAAATCAATGAATTCACCGAAACAACTCCATTCAAGCAATATTTC
TTTACATGGCGTGATCATGGTGCATCACATTCTCGCCTTATTTGA

>g1280.t18 Gene=g1280 Length=202
MNKGDCFVLDAGNKVYIYVGPKAKRVEKMKATSFANQVRDEDHHGRSSVEIVDEFSNDVD
KAHFFEVLGSGSIEQVPDESVAEDDEAFERKEEAATTLSKVSDASGSLKVEQINQKPLKQ
EMLNTNDCFILDTGSGIYVWIGKKSTEQEKKQAMSRAQGFIQTKKYPAWTKVTKINEFTE
TTPFKQYFFTWRDHGASHSRLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g1280.t18 CDD cd11292 gelsolin_S3_like 93 188 0.0e+00
11 g1280.t18 Gene3D G3DSA:3.40.20.10 Severin 1 87 0.0e+00
12 g1280.t18 Gene3D G3DSA:3.40.20.10 Severin 89 200 0.0e+00
3 g1280.t18 PANTHER PTHR11977 VILLIN 1 200 0.0e+00
4 g1280.t18 PANTHER PTHR11977:SF55 GELSOLIN 1 200 0.0e+00
5 g1280.t18 PRINTS PR00597 Gelsolin family signature 120 142 3.8e-05
6 g1280.t18 PRINTS PR00597 Gelsolin family signature 149 168 3.8e-05
2 g1280.t18 Pfam PF00626 Gelsolin repeat 2 53 2.0e-07
1 g1280.t18 Pfam PF00626 Gelsolin repeat 116 172 0.0e+00
9 g1280.t18 SMART SM00262 VILL_6 1 71 6.1e-03
10 g1280.t18 SMART SM00262 VILL_6 97 191 0.0e+00
8 g1280.t18 SUPERFAMILY SSF55753 Actin depolymerizing proteins 2 105 0.0e+00
7 g1280.t18 SUPERFAMILY SSF55753 Actin depolymerizing proteins 92 193 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. There were no conditions that were differentially expressed