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.t9 TTS g1278.t9 9411710 9411710
chr_3 g1278 g1278.t9 isoform g1278.t9 9411812 9414195
chr_3 g1278 g1278.t9 exon g1278.t9.exon1 9411812 9411868
chr_3 g1278 g1278.t9 exon g1278.t9.exon2 9412346 9412404
chr_3 g1278 g1278.t9 exon g1278.t9.exon3 9412465 9412531
chr_3 g1278 g1278.t9 exon g1278.t9.exon4 9412593 9412676
chr_3 g1278 g1278.t9 cds g1278.t9.CDS1 9412663 9412676
chr_3 g1278 g1278.t9 exon g1278.t9.exon5 9412725 9414195
chr_3 g1278 g1278.t9 cds g1278.t9.CDS2 9412725 9413877
chr_3 g1278 g1278.t9 TSS g1278.t9 NA NA

Sequences

>g1278.t9 Gene=g1278 Length=1738
GAGATTTTTGTTTATGTCGGTGCTAAAGCAAAGCGAGCAGAAAAAATTAAAGCAATTAGT
GCTGCACATCAAATTCGTGATCAAGACCATAATGGACGCGCTTCAATTGAAATTATTGAT
GAATTCTCTAGTGAACACGATGTTCATAACTTTTTCAAAGTTCTTGGTTCAGGCTCACCT
GATGAAGTGACAGATGAAAGCGAAGATGATGAAGCATTTGAAAGAAGTCAAGAAAGTGAA
ACAACTCTTTATACTGTCAGTGATGCATCAGGAAAATTGACAATTGAACCAATCGCTCAA
AAACCACTTAGACAAGAAATGTTGAATACTAACGATTGCTTTATTCTCGATACTGGTCAT
GGAATTTTCGTTTGGGTTGGAAAAGGTTCAACAGATCAAGAGAAAAAGCAAGCCATTAAT
CATGCACAAGAATTTATTAAGAAAAAGAATTATCCAACATGGACTAAAGTATCGAGAATT
GTTGAAGGTGCAGAAACAGCTCCGTTTAAGCAATACTTTATGTCATGGCGTGATAAGGGA
ACAACTTATTCTCGTCTTATTCGTATTGCAAATGATAATGACAGTGATACAGCAACTGAT
GAAGAATTTGATGCATCTGTTTTACATAAACTTAAGAAAAGTGGTGGTCGTGCACTTGGC
TTCATGCCAGATAATGGAGAAGGTGAAGCTGAAGTCTTTAGAGTTGAAAATATGGAAATT
GTGCCAATTCCAAAAGAAAATTATGGTTTCTTTTTTGGTGGTGATTCTTATGTCATTAAA
TATGAATATAGAAATAAACGTGGTGGACATGGATATGTTATTTACTATTGGCAAGGGTTA
ACTTCATCAACTGATGAGAAAGCTGCATCAGCAATTCATGCTGCAAAAATGAGCAGTGAA
ATAGGAGTAAAATCAATGCAAGTTCGTGTTGTTCAAGGCTTTGAATCACGTCATTTCTTA
AAAGTTTTTAAAGGAAAAATTGTGGTTTTAACTGGAGGAAAAGCCTCAGGCTTTAGAAAT
GTTCATGACCATGATTCTTATGATGTTGATGGCACAAGATTGTTTAGAGTTCGTGGAACA
TGTGCTGATGATGTTCGTGCTAATCAAGTTGAAGAGGTTGCCAAGTCGCTTGCATCTGAT
GATGTTTTCATTTTGGAAACACCGACAAATACTTTTGTTTGGTATGGAAAAGGTGCAAAT
GATTTTGAACAATCAATGGGATTGAGCGTTAGTAAAACAATTTCTCCTGGTCGTGATGCA
ATTGTTATCTATGAAGGAGAAGAACCAAATGAATTTTGGGATGCATTAGGAGGAAAGGGC
GATTATGATCATGAAATTGACCCACCTGGCGCACCATTCTTAGAACCACGTTTGTTCCAT
TGCTCTATTAAAACAAATGGTAAATTTAAAGTTGAAGAAGTTTCACAGTTCGAACAAGAT
GATTTGGATCCTGATGATATCATGGTGGTATCTCGATGGTGGTGATGAAGTTTATGTTTG
GGTTGGAAAGGGATCAACTGATGAAGAAAAAGCAAAGAGCATTGAAATGGCAAATGAATA
TATCCGTACTGATCCAACTGAAAGAAGTGAAGAAACTGTAACAATTATTACTGTTCAACA
AGGTGGAGAACCAAGAAGTTTCAAACGTTTATTCCCAGCATGGAATGACCATTTGTGGGA
GAAATACGTTTCATATGAAGATTATAGAAATCAAGTCATGGCTGCAAACAAGAAGTGA

>g1278.t9 Gene=g1278 Length=388
MLNTNDCFILDTGHGIFVWVGKGSTDQEKKQAINHAQEFIKKKNYPTWTKVSRIVEGAET
APFKQYFMSWRDKGTTYSRLIRIANDNDSDTATDEEFDASVLHKLKKSGGRALGFMPDNG
EGEAEVFRVENMEIVPIPKENYGFFFGGDSYVIKYEYRNKRGGHGYVIYYWQGLTSSTDE
KAASAIHAAKMSSEIGVKSMQVRVVQGFESRHFLKVFKGKIVVLTGGKASGFRNVHDHDS
YDVDGTRLFRVRGTCADDVRANQVEEVAKSLASDDVFILETPTNTFVWYGKGANDFEQSM
GLSVSKTISPGRDAIVIYEGEEPNEFWDALGGKGDYDHEIDPPGAPFLEPRLFHCSIKTN
GKFKVEEVSQFEQDDLDPDDIMVVSRWW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g1278.t9 CDD cd11292 gelsolin_S3_like 1 67 0.0e+00
24 g1278.t9 CDD cd11293 gelsolin_S4_like 116 217 0.0e+00
23 g1278.t9 CDD cd11288 gelsolin_S5_like 244 335 0.0e+00
19 g1278.t9 Gene3D G3DSA:3.40.20.10 Severin 1 80 0.0e+00
22 g1278.t9 Gene3D G3DSA:3.40.20.10 Severin 115 249 0.0e+00
21 g1278.t9 Gene3D G3DSA:3.40.20.10 Severin 250 338 0.0e+00
20 g1278.t9 Gene3D G3DSA:3.40.20.10 Severin 345 388 0.0e+00
4 g1278.t9 PANTHER PTHR11977 VILLIN 1 385 0.0e+00
10 g1278.t9 PRINTS PR00597 Gelsolin family signature 49 70 0.0e+00
6 g1278.t9 PRINTS PR00597 Gelsolin family signature 141 157 0.0e+00
9 g1278.t9 PRINTS PR00597 Gelsolin family signature 167 185 0.0e+00
8 g1278.t9 PRINTS PR00597 Gelsolin family signature 200 220 0.0e+00
5 g1278.t9 PRINTS PR00597 Gelsolin family signature 259 279 0.0e+00
11 g1278.t9 PRINTS PR00597 Gelsolin family signature 319 338 0.0e+00
7 g1278.t9 PRINTS PR00597 Gelsolin family signature 373 388 0.0e+00
1 g1278.t9 Pfam PF00626 Gelsolin repeat 2 63 0.0e+00
3 g1278.t9 Pfam PF00626 Gelsolin repeat 132 214 0.0e+00
2 g1278.t9 Pfam PF00626 Gelsolin repeat 264 327 3.1e-05
17 g1278.t9 SMART SM00262 VILL_6 1 70 0.0e+00
18 g1278.t9 SMART SM00262 VILL_6 122 220 0.0e+00
16 g1278.t9 SMART SM00262 VILL_6 246 333 0.0e+00
15 g1278.t9 SUPERFAMILY SSF55753 Actin depolymerizing proteins 1 73 0.0e+00
12 g1278.t9 SUPERFAMILY SSF55753 Actin depolymerizing proteins 115 254 0.0e+00
14 g1278.t9 SUPERFAMILY SSF55753 Actin depolymerizing proteins 237 337 0.0e+00
13 g1278.t9 SUPERFAMILY SSF55753 Actin depolymerizing proteins 322 384 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