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.t16 TTS g1280.t16 9418880 9418880
chr_3 g1280 g1280.t16 isoform g1280.t16 9418995 9421224
chr_3 g1280 g1280.t16 exon g1280.t16.exon1 9418995 9419939
chr_3 g1280 g1280.t16 cds g1280.t16.CDS1 9418995 9419939
chr_3 g1280 g1280.t16 exon g1280.t16.exon2 9420003 9420077
chr_3 g1280 g1280.t16 cds g1280.t16.CDS2 9420003 9420077
chr_3 g1280 g1280.t16 exon g1280.t16.exon3 9420134 9420248
chr_3 g1280 g1280.t16 cds g1280.t16.CDS3 9420134 9420248
chr_3 g1280 g1280.t16 exon g1280.t16.exon4 9420321 9420486
chr_3 g1280 g1280.t16 cds g1280.t16.CDS4 9420321 9420358
chr_3 g1280 g1280.t16 exon g1280.t16.exon5 9421190 9421224
chr_3 g1280 g1280.t16 TSS g1280.t16 9421282 9421282

Sequences

>g1280.t16 Gene=g1280 Length=1336
GCTACTTTACTTGTTTTAGATTTCCAAAGTCAAAGTTGAAGCAGTTGATTGAACTACTTT
GAGAAAGAAAACATTGTGTAATAGTGATGAATAAGAAATTACCATAAGCGAATACTATTT
TTTTAAAACTTCTTTCATTTGCAGTATCTTGAATACGCAAAACATGTGGAAACTGTGCTG
TGTTTTAATAATCGCTATAAGCGCGTTAAATTCAATAGAATGTGCAACAACTCAAAGTAG
ACCAAGTCAAGTAGTCATCCCGCAAGCATTCATAAATGCAGGAAAAACAAAAGGTTTAGA
GATTTGGAGGATTGAGAATTTTAAAGTTGTTGCTGTGCAAAAAAATACCTATGGCCAATT
TCACACCGGCGATTCTTACATTGTATTGAATACAATGGAGAATAAAAATAAGCAACTTTC
ATGGGATGTTCATTTTTGGCTTGGACTTGAAACAACGCAAGATGAGGCAGGTGCTGCTGC
AATTTACACTGTACAACTTGATGATGCTCTTGGAGGAGCACCAGTTCAACATCGTGAAGT
TCAAGAGCAAGAATCACAACTTTTCTTAGGATATTTCAAGAGCAGTGGTGGAATTAAATA
TTTGCCTGGTGGTGTTGCGAGCGGATTTAGAAAAACAGAAATAAATGCAATTGGTGAGAA
ACGCCTATTTCAAGTAAAAGGAAAGAAAAATGTTCGCGTTCGTCAAGTTGATTTGACAAT
TGGGTCAATGAATAAAGGCGATTGCTTTGTTCTTGATGCTGGCAATAAAGTCTATATTTA
TGTTGGACCAAAAGCTAAACGAGTTGAGAAAATGAAGGCAACAAGTTTTGCAAATCAAGT
GCGTGATGAAGACCATCATGGACGATCATCTGTTGAAATTGTTGATGAATTTTCAAATGA
TGTTGATAAGGCTCATTTCTTTGAAGTGCTTGGTTCAGGTTCAATTGAACAAGTGCCAGA
TGAAAGCGTTGCTGAAGATGATGAGGCATTTGAAAGAAAAGAAGAAGCTGCAACAACTTT
GAGTAAAGTTAGTGATGCATCAGGAAGCTTGAAAGTTGAACAAATTAATCAAAAACCATT
GAAACAAGAAATGCTGAATACTAACGATTGCTTTATTCTTGATACTGGAAGTGGTATTTA
TGTTTGGATTGGTAAGAAATCAACTGAACAAGAGAAAAAACAAGCAATGTCACGTGCTCA
GGGATTTATTCAAACGAAGAAATATCCTGCATGGACTAAAGTAACAAAAATCAATGAATT
CACCGAAACAACTCCATTCAAGCAATATTTCTTTACATGGCGTGATCATGGTGCATCACA
TTCTCGCCTTATTTGA

>g1280.t16 Gene=g1280 Length=390
MWKLCCVLIIAISALNSIECATTQSRPSQVVIPQAFINAGKTKGLEIWRIENFKVVAVQK
NTYGQFHTGDSYIVLNTMENKNKQLSWDVHFWLGLETTQDEAGAAAIYTVQLDDALGGAP
VQHREVQEQESQLFLGYFKSSGGIKYLPGGVASGFRKTEINAIGEKRLFQVKGKKNVRVR
QVDLTIGSMNKGDCFVLDAGNKVYIYVGPKAKRVEKMKATSFANQVRDEDHHGRSSVEIV
DEFSNDVDKAHFFEVLGSGSIEQVPDESVAEDDEAFERKEEAATTLSKVSDASGSLKVEQ
INQKPLKQEMLNTNDCFILDTGSGIYVWIGKKSTEQEKKQAMSRAQGFIQTKKYPAWTKV
TKINEFTETTPFKQYFFTWRDHGASHSRLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
26 g1280.t16 CDD cd11290 gelsolin_S1_like 36 150 6.19028E-61
24 g1280.t16 CDD cd11289 gelsolin_S2_like 165 257 1.46958E-35
25 g1280.t16 CDD cd11292 gelsolin_S3_like 281 376 6.86218E-43
18 g1280.t16 Gene3D G3DSA:3.40.20.10 Severin 32 163 3.6E-47
16 g1280.t16 Gene3D G3DSA:3.40.20.10 Severin 164 268 1.3E-27
17 g1280.t16 Gene3D G3DSA:3.40.20.10 Severin 277 388 3.2E-35
4 g1280.t16 PANTHER PTHR11977 VILLIN 26 388 9.5E-143
5 g1280.t16 PANTHER PTHR11977:SF55 GELSOLIN 26 388 9.5E-143
10 g1280.t16 PRINTS PR00597 Gelsolin family signature 62 78 6.6E-17
8 g1280.t16 PRINTS PR00597 Gelsolin family signature 88 106 6.6E-17
9 g1280.t16 PRINTS PR00597 Gelsolin family signature 121 141 6.6E-17
7 g1280.t16 PRINTS PR00597 Gelsolin family signature 308 330 6.6E-17
6 g1280.t16 PRINTS PR00597 Gelsolin family signature 337 356 6.6E-17
3 g1280.t16 Pfam PF00626 Gelsolin repeat 52 135 2.9E-14
1 g1280.t16 Pfam PF00626 Gelsolin repeat 176 241 1.7E-10
2 g1280.t16 Pfam PF00626 Gelsolin repeat 304 360 2.3E-14
20 g1280.t16 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
21 g1280.t16 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
22 g1280.t16 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
23 g1280.t16 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
19 g1280.t16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 390 -
30 g1280.t16 SMART SM00262 VILL_6 43 141 3.1E-24
29 g1280.t16 SMART SM00262 VILL_6 164 259 2.1E-24
28 g1280.t16 SMART SM00262 VILL_6 285 379 1.4E-30
11 g1280.t16 SUPERFAMILY SSF55753 Actin depolymerizing proteins 34 176 1.43E-37
13 g1280.t16 SUPERFAMILY SSF55753 Actin depolymerizing proteins 165 259 2.29E-19
12 g1280.t16 SUPERFAMILY SSF55753 Actin depolymerizing proteins 280 381 1.44E-24
15 g1280.t16 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
27 g1280.t16 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 21 -
14 g1280.t16 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 23 -

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