Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g1278 g1278.t13 isoform g1278.t13 9412190 9413563
chr_3 g1278 g1278.t13 exon g1278.t13.exon1 9412190 9412398
chr_3 g1278 g1278.t13 TTS g1278.t13 9412202 9412202
chr_3 g1278 g1278.t13 cds g1278.t13.CDS1 9412328 9412398
chr_3 g1278 g1278.t13 exon g1278.t13.exon2 9412465 9412531
chr_3 g1278 g1278.t13 cds g1278.t13.CDS2 9412465 9412531
chr_3 g1278 g1278.t13 exon g1278.t13.exon3 9412593 9412676
chr_3 g1278 g1278.t13 cds g1278.t13.CDS3 9412593 9412676
chr_3 g1278 g1278.t13 exon g1278.t13.exon4 9412729 9413563
chr_3 g1278 g1278.t13 cds g1278.t13.CDS4 9412729 9413532
chr_3 g1278 g1278.t13 TSS g1278.t13 NA NA

Sequences

>g1278.t13 Gene=g1278 Length=1195
TAAGAAAAGTGGTGGTCGTGCACTTGGCTTCATGCCAGATAATGGAGAAGGTGAAGCTGA
AGTCTTTAGAGTTGAAAATATGGAAATTGTGCCAATTCCAAAAGAAAATTATGGTTTCTT
TTTTGGTGGTGATTCTTATGTCATTAAATATGAATATAGAAATAAACGTGGTGGACATGG
ATATGTTATTTACTATTGGCAAGGGTTAACTTCATCAACTGATGAGAAAGCTGCATCAGC
AATTCATGCTGCAAAAATGAGCAGTGAAATAGGAGTAAAATCAATGCAAGTTCGTGTTGT
TCAAGGCTTTGAATCACGTCATTTCTTAAAAGTTTTTAAAGGAAAAATTGTGGTTTTAAC
TGGAGGAAAAGCCTCAGGCTTTAGAAATGTTCATGACCATGATTCTTATGATGTTGATGG
CACAAGATTGTTTAGAGTTCGTGGAACATGTGCTGATGATGTTCGTGCTAATCAAGTTGA
AGAGGTTGCCAAGTCGCTTGCATCTGATGATGTTTTCATTTTGGAAACACCGACAAATAC
TTTTGTTTGGTATGGAAAAGGTGCAAATGATTTTGAACAATCAATGGGATTGAGCGTTAG
TAAAACAATTTCTCCTGGTCGTGATGCAATTGTTATCTATGAAGGAGAAGAACCAAATGA
ATTTTGGGATGCATTAGGAGGAAAGGGCGATTATGATCATGAAATTGACCCACCTGGCGC
ACCATTCTTAGAACCACGTTTGTTCCATTGCTCTATTAAAACAAATGGTAAATTTAAAGT
TGAAGAAGTTTCACAGTTCGAACAAGATGATTTGGATCCTGATGATATCATGGTGCTCGA
TGGTGGTGATGAAGTTTATGTTTGGGTTGGAAAGGGATCAACTGATGAAGAAAAAGCAAA
GAGCATTGAAATGGCAAATGAATATATCCGTACTGATCCAACTGAAAGAAGTGAAGAAAC
TGTAACAATTATTACTGTTCAACAAGAACCAAGAAGTTTCAAACGTTTATTCCCAGCATG
GAATGACCATTTGTGGGAGGTACGAGGATATGTATAAGACTATTTTACTGAGTGTTTTTT
TTATTATTAAATGATAATTTATTGCTTTATTTAATGAACAAATTTTATTAGTCAAATCTA
TCATGACTGTCTTTTTCTGTGCTTTATAAAATATTTTAAAAGAAATTGAATTGTC

>g1278.t13 Gene=g1278 Length=341
MPDNGEGEAEVFRVENMEIVPIPKENYGFFFGGDSYVIKYEYRNKRGGHGYVIYYWQGLT
SSTDEKAASAIHAAKMSSEIGVKSMQVRVVQGFESRHFLKVFKGKIVVLTGGKASGFRNV
HDHDSYDVDGTRLFRVRGTCADDVRANQVEEVAKSLASDDVFILETPTNTFVWYGKGAND
FEQSMGLSVSKTISPGRDAIVIYEGEEPNEFWDALGGKGDYDHEIDPPGAPFLEPRLFHC
SIKTNGKFKVEEVSQFEQDDLDPDDIMVLDGGDEVYVWVGKGSTDEEKAKSIEMANEYIR
TDPTERSEETVTIITVQQEPRSFKRLFPAWNDHLWEVRGYV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g1278.t13 CDD cd11293 gelsolin_S4_like 1 102 0.0e+00
22 g1278.t13 CDD cd11288 gelsolin_S5_like 129 220 0.0e+00
21 g1278.t13 CDD cd11291 gelsolin_S6_like 234 331 0.0e+00
18 g1278.t13 Gene3D G3DSA:3.40.20.10 Severin 3 133 0.0e+00
19 g1278.t13 Gene3D G3DSA:3.40.20.10 Severin 134 223 0.0e+00
20 g1278.t13 Gene3D G3DSA:3.40.20.10 Severin 230 340 0.0e+00
4 g1278.t13 PANTHER PTHR11977 VILLIN 3 333 0.0e+00
6 g1278.t13 PRINTS PR00597 Gelsolin family signature 26 42 0.0e+00
5 g1278.t13 PRINTS PR00597 Gelsolin family signature 52 70 0.0e+00
11 g1278.t13 PRINTS PR00597 Gelsolin family signature 85 105 0.0e+00
9 g1278.t13 PRINTS PR00597 Gelsolin family signature 144 164 0.0e+00
10 g1278.t13 PRINTS PR00597 Gelsolin family signature 204 223 0.0e+00
7 g1278.t13 PRINTS PR00597 Gelsolin family signature 258 280 0.0e+00
8 g1278.t13 PRINTS PR00597 Gelsolin family signature 287 306 0.0e+00
3 g1278.t13 Pfam PF00626 Gelsolin repeat 17 99 0.0e+00
2 g1278.t13 Pfam PF00626 Gelsolin repeat 149 212 2.5e-05
1 g1278.t13 Pfam PF00626 Gelsolin repeat 248 323 0.0e+00
16 g1278.t13 SMART SM00262 VILL_6 7 105 0.0e+00
17 g1278.t13 SMART SM00262 VILL_6 131 218 0.0e+00
15 g1278.t13 SMART SM00262 VILL_6 235 330 0.0e+00
13 g1278.t13 SUPERFAMILY SSF55753 Actin depolymerizing proteins 3 139 0.0e+00
14 g1278.t13 SUPERFAMILY SSF55753 Actin depolymerizing proteins 122 222 0.0e+00
12 g1278.t13 SUPERFAMILY SSF55753 Actin depolymerizing proteins 207 336 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.

Raw TPM values