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.t7 TTS g1279.t7 9417096 9417096
chr_3 g1279 g1279.t7 isoform g1279.t7 9417233 9421548
chr_3 g1279 g1279.t7 exon g1279.t7.exon1 9417233 9417300
chr_3 g1279 g1279.t7 cds g1279.t7.CDS1 9417233 9417300
chr_3 g1279 g1279.t7 exon g1279.t7.exon2 9417359 9417422
chr_3 g1279 g1279.t7 cds g1279.t7.CDS2 9417359 9417422
chr_3 g1279 g1279.t7 exon g1279.t7.exon3 9417483 9417569
chr_3 g1279 g1279.t7 cds g1279.t7.CDS3 9417483 9417569
chr_3 g1279 g1279.t7 exon g1279.t7.exon4 9417638 9418208
chr_3 g1279 g1279.t7 cds g1279.t7.CDS4 9417638 9418201
chr_3 g1279 g1279.t7 exon g1279.t7.exon5 9418259 9418595
chr_3 g1279 g1279.t7 exon g1279.t7.exon6 9418662 9418698
chr_3 g1279 g1279.t7 exon g1279.t7.exon7 9421190 9421548
chr_3 g1279 g1279.t7 TSS g1279.t7 NA NA

Sequences

>g1279.t7 Gene=g1279 Length=1523
TTTCCATCGTGGAAGAATTTTTTTTGGAAAATTTGTTTACAATTTGAATTTTTGAAAAAT
AACCGTCATATTCTCAAGAAATTTCTTTTATTTTGCAAACATGTCTTGATTGATCAATCA
ATAGCATGATTCATGTTAATTTTGATAATAAATTTACACTTAAAAGAGAATTACTCTCCT
AATGTTATTTATTTCTCTCATACAATTTTTGTATAAAAACTCTCAAGTTTACTCAAAAAT
CAACTGTACATCACTCATCACTGTTCAGTCGGTTGTAAACTTCTGTAGTGTAAAAGTGAA
AATTAATAAAAACGCCGGTATCAAGCTACTTTACTTGTTTTAGATTTCCAAAGTCAAAGC
GACAAATATGTGGAAATTGCTGTTGACTATTTTAAGTTTACATAAATTTATAAATTGTCA
AGAATTTAATATATCACATTTACATAAAACTAGACCGAAGGACTATAGTTTTAGTTTCAT
TCCTGATAATGGAGAGGGTGAAACTGAAATTTTCAGATTTATAAATTCAAACATGTTTTC
TGTTGAATTAAAAGATTATGGCGTTTTTGATGGTGGTGATTCTTATGTCGTAAAATATAA
ATACAAAGATAAAAATTATAAAGACAGCTATATTATTTATAGTTGGAAAGGAATCAATTC
CAACAGATTTGAAAAAGTTGGAGCAATTTTCTTTTCCGTGAAAATGAAAAATGATTTGAC
AAAACGAAAGTAAATTCATTATGGCTGGATTACCAACTAAGCTAAGCAATGACACAGAAG
ACATTTTTGTGAAGCAAATTCAAATAGATCAAAGTTGTGAAACTCCACATTTTTTAAAAA
TTTTTAAAGGCAAAACTTTATTTACTGGTATTTTTAATCAAGATTCTTATGATATTGATG
GAATAAGGCTATTTAGAATTCGTGGAACTAATGAGGGAAATGTTCGCACTACTCAAGTTG
AAAAAATAGCTAAATCGCTTGCATCAGATGATGTTTTTATTTTAGACACACCAGCAAATA
CTTTTGTTTGGTATGGTGATGGTGCAAACGACTTTGAGTACTCAACAGGACTTCTTATGA
GTAAAAGATTCTCTCAAGACCGAAATGCAATTGTTATTTATGAAGGTGAAGAGCCAGATG
AATTTTGGAATGCATTAGGAGGAAAGGATGATTATGACCATGAAATCGATCCATCATCTT
CATCATTTGAAATACGTTTTTTTAAATGTACTAGATTTATAACACACCTTGGGGAAACTT
TCATTTTTGATGACCTTGATTCATTTTCCGATGAGATTTTAGTGATTGATGATGGTAATG
AAAATGTGTACTTTTATATAGGAGAGAAAACTCATGAAATACAAATAAAACAATGTTTCA
TTGAAACAAAAGCTTACATTGAAACTGAACCAACTGGACGATTTAAGAATTTGGAACCAA
TAATTCTTCAAAGAGGTAATGTAACAAAAGCTTTCAAAAGATTATTCTCATGTAATGATA
TTTTTTGGGATTTACGACATTAA

>g1279.t7 Gene=g1279 Length=260
MAGLPTKLSNDTEDIFVKQIQIDQSCETPHFLKIFKGKTLFTGIFNQDSYDIDGIRLFRI
RGTNEGNVRTTQVEKIAKSLASDDVFILDTPANTFVWYGDGANDFEYSTGLLMSKRFSQD
RNAIVIYEGEEPDEFWNALGGKDDYDHEIDPSSSSFEIRFFKCTRFITHLGETFIFDDLD
SFSDEILVIDDGNENVYFYIGEKTHEIQIKQCFIETKAYIETEPTGRFKNLEPIILQRGN
VTKAFKRLFSCNDIFWDLRH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g1279.t7 CDD cd11288 gelsolin_S5_like 53 144 0.00e+00
12 g1279.t7 Gene3D G3DSA:3.40.20.10 Severin 53 148 0.00e+00
13 g1279.t7 Gene3D G3DSA:3.40.20.10 Severin 150 259 0.00e+00
2 g1279.t7 PANTHER PTHR11977 VILLIN 16 250 0.00e+00
6 g1279.t7 PRINTS PR00597 Gelsolin family signature 18 38 0.00e+00
5 g1279.t7 PRINTS PR00597 Gelsolin family signature 68 88 0.00e+00
7 g1279.t7 PRINTS PR00597 Gelsolin family signature 128 147 0.00e+00
4 g1279.t7 PRINTS PR00597 Gelsolin family signature 179 201 0.00e+00
3 g1279.t7 PRINTS PR00597 Gelsolin family signature 208 227 0.00e+00
1 g1279.t7 Pfam PF00626 Gelsolin repeat 69 136 4.50e-05
11 g1279.t7 SMART SM00262 VILL_6 55 142 0.00e+00
8 g1279.t7 SUPERFAMILY SSF55753 Actin depolymerizing proteins 15 64 3.04e-05
9 g1279.t7 SUPERFAMILY SSF55753 Actin depolymerizing proteins 46 151 0.00e+00
10 g1279.t7 SUPERFAMILY SSF55753 Actin depolymerizing proteins 131 250 5.00e-07

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