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.t2 isoform g1279.t2 9417095 9421548
chr_3 g1279 g1279.t2 exon g1279.t2.exon1 9417095 9417300
chr_3 g1279 g1279.t2 TTS g1279.t2 9417096 9417096
chr_3 g1279 g1279.t2 cds g1279.t2.CDS1 9417233 9417300
chr_3 g1279 g1279.t2 exon g1279.t2.exon2 9417359 9417422
chr_3 g1279 g1279.t2 cds g1279.t2.CDS2 9417359 9417422
chr_3 g1279 g1279.t2 exon g1279.t2.exon3 9417483 9417569
chr_3 g1279 g1279.t2 cds g1279.t2.CDS3 9417483 9417569
chr_3 g1279 g1279.t2 exon g1279.t2.exon4 9417638 9418208
chr_3 g1279 g1279.t2 cds g1279.t2.CDS4 9417638 9418208
chr_3 g1279 g1279.t2 exon g1279.t2.exon5 9418263 9418595
chr_3 g1279 g1279.t2 cds g1279.t2.CDS5 9418263 9418595
chr_3 g1279 g1279.t2 exon g1279.t2.exon6 9418662 9418698
chr_3 g1279 g1279.t2 cds g1279.t2.CDS6 9418662 9418690
chr_3 g1279 g1279.t2 exon g1279.t2.exon7 9421190 9421548
chr_3 g1279 g1279.t2 TSS g1279.t2 NA NA

Sequences

>g1279.t2 Gene=g1279 Length=1657
TTTCCATCGTGGAAGAATTTTTTTTGGAAAATTTGTTTACAATTTGAATTTTTGAAAAAT
AACCGTCATATTCTCAAGAAATTTCTTTTATTTTGCAAACATGTCTTGATTGATCAATCA
ATAGCATGATTCATGTTAATTTTGATAATAAATTTACACTTAAAAGAGAATTACTCTCCT
AATGTTATTTATTTCTCTCATACAATTTTTGTATAAAAACTCTCAAGTTTACTCAAAAAT
CAACTGTACATCACTCATCACTGTTCAGTCGGTTGTAAACTTCTGTAGTGTAAAAGTGAA
AATTAATAAAAACGCCGGTATCAAGCTACTTTACTTGTTTTAGATTTCCAAAGTCAAAGC
GACAAATATGTGGAAATTGCTGTTGACTATTTTAAGTTTACATAAATTTATAAATTGTCA
AGAATTTAATATATCACATTTACATAAAACTAGACCGAAGGACTATAGTTTTAGTTTCAT
TCCTGATAATGGAGAGGGTGAAACTGAAATTTTCAGATTTATAAATTCAAACATGTTTTC
TGTTGAATTAAAAGATTATGGCGTTTTTGATGGTGGTGATTCTTATGTCGTAAAATATAA
ATACAAAGATAAAAATTATAAAGACAGCTATATTATTTATAGTTGGAAAGGAATCAATTC
CAACAGATTTGAAAAAGTTGGAGCAATTTTCTTTTCCGTGAAAATGAAAAATGATTTGAC
AAAACGAAAATTCATTATGGCTGGATTACCAACTAAGCTAAGCAATGACACAGAAGACAT
TTTTGTGAAGCAAATTCAAATAGATCAAAGTTGTGAAACTCCACATTTTTTAAAAATTTT
TAAAGGCAAAACTTTATTTACTGGTATTTTTAATCAAGATTCTTATGATATTGATGGAAT
AAGGCTATTTAGAATTCGTGGAACTAATGAGGGAAATGTTCGCACTACTCAAGTTGAAAA
AATAGCTAAATCGCTTGCATCAGATGATGTTTTTATTTTAGACACACCAGCAAATACTTT
TGTTTGGTATGGTGATGGTGCAAACGACTTTGAGTACTCAACAGGACTTCTTATGAGTAA
AAGATTCTCTCAAGACCGAAATGCAATTGTTATTTATGAAGGTGAAGAGCCAGATGAATT
TTGGAATGCATTAGGAGGAAAGGATGATTATGACCATGAAATCGATCCATCATCTTCATC
ATTTGAAATACGTTTTTTTAAATGTACTAGATTTATAACACACCTTGGGGAAACTTTCAT
TTTTGATGACCTTGATTCATTTTCCGATGAGATTTTAGTGATTGATGATGGTAATGAAAA
TGTGTACTTTTATATAGGAGAGAAAACTCATGAAATACAAATAAAACAATGTTTCATTGA
AACAAAAGCTTACATTGAAACTGAACCAACTGGACGATTTAAGAATTTGGAACCAATAAT
TCTTCAAAGAGGTAATGTAACAAAAGCTTTCAAAAGATTATTCTCATGTAATGATATTTT
TTGGGATTTACGACATTAAGAAATGAAATCTGTTGAAATCAATTTTTCTTATTGTTCCAT
TTATCTTTGGTTATCTTGTTAAAACTCAATCATTGTGAACATTTTTAATTTTACCGAAAT
AATAAACAACTTTTATAAACAAGCAATTTCCATCAGC

>g1279.t2 Gene=g1279 Length=383
MWKLLLTILSLHKFINCQEFNISHLHKTRPKDYSFSFIPDNGEGETEIFRFINSNMFSVE
LKDYGVFDGGDSYVVKYKYKDKNYKDSYIIYSWKGINSNRFEKVGAIFFSVKMKNDLTKR
KFIMAGLPTKLSNDTEDIFVKQIQIDQSCETPHFLKIFKGKTLFTGIFNQDSYDIDGIRL
FRIRGTNEGNVRTTQVEKIAKSLASDDVFILDTPANTFVWYGDGANDFEYSTGLLMSKRF
SQDRNAIVIYEGEEPDEFWNALGGKDDYDHEIDPSSSSFEIRFFKCTRFITHLGETFIFD
DLDSFSDEILVIDDGNENVYFYIGEKTHEIQIKQCFIETKAYIETEPTGRFKNLEPIILQ
RGNVTKAFKRLFSCNDIFWDLRH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g1279.t2 CDD cd11288 gelsolin_S5_like 176 267 5.35421E-29
13 g1279.t2 Gene3D G3DSA:3.40.20.10 Severin 35 176 1.4E-17
14 g1279.t2 Gene3D G3DSA:3.40.20.10 Severin 177 271 3.7E-23
15 g1279.t2 Gene3D G3DSA:3.40.20.10 Severin 273 382 8.4E-8
2 g1279.t2 PANTHER PTHR11977 VILLIN 17 373 1.4E-52
8 g1279.t2 PRINTS PR00597 Gelsolin family signature 63 79 1.2E-26
7 g1279.t2 PRINTS PR00597 Gelsolin family signature 89 107 1.2E-26
3 g1279.t2 PRINTS PR00597 Gelsolin family signature 191 211 1.2E-26
6 g1279.t2 PRINTS PR00597 Gelsolin family signature 251 270 1.2E-26
4 g1279.t2 PRINTS PR00597 Gelsolin family signature 302 324 1.2E-26
5 g1279.t2 PRINTS PR00597 Gelsolin family signature 331 350 1.2E-26
1 g1279.t2 Pfam PF00626 Gelsolin repeat 193 259 8.6E-5
17 g1279.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
18 g1279.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
19 g1279.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 12 -
20 g1279.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
16 g1279.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 383 -
23 g1279.t2 SMART SM00262 VILL_6 44 161 3.8E-5
22 g1279.t2 SMART SM00262 VILL_6 178 265 1.0E-17
11 g1279.t2 SUPERFAMILY SSF55753 Actin depolymerizing proteins 37 187 8.41E-20
10 g1279.t2 SUPERFAMILY SSF55753 Actin depolymerizing proteins 169 274 3.51E-23
9 g1279.t2 SUPERFAMILY SSF55753 Actin depolymerizing proteins 254 373 1.24E-6
12 g1279.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -

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