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.t7 TTS g1280.t7 9418880 9418880
chr_3 g1280 g1280.t7 isoform g1280.t7 9418995 9420379
chr_3 g1280 g1280.t7 exon g1280.t7.exon1 9418995 9419939
chr_3 g1280 g1280.t7 cds g1280.t7.CDS1 9418995 9419939
chr_3 g1280 g1280.t7 exon g1280.t7.exon2 9420012 9420077
chr_3 g1280 g1280.t7 cds g1280.t7.CDS2 9420012 9420077
chr_3 g1280 g1280.t7 exon g1280.t7.exon3 9420134 9420248
chr_3 g1280 g1280.t7 cds g1280.t7.CDS3 9420134 9420248
chr_3 g1280 g1280.t7 exon g1280.t7.exon4 9420321 9420379
chr_3 g1280 g1280.t7 cds g1280.t7.CDS4 9420321 9420358
chr_3 g1280 g1280.t7 TSS g1280.t7 9421282 9421282

Sequences

>g1280.t7 Gene=g1280 Length=1185
AGTATCTTGAATACGCAAAACATGTGGAAACTGTGCTGTGTTTTAATAATCGCTATAAGC
GCGTTAAATTCAATAGAATGTGCAACAACTCAAAGTAGACCAAGTCAAGTAGTCATCCCG
CAAGCATTCATAAATGCAGGAAAAACAAAAGGTTTAGAGATTTGGAGGATTGAGAATTTT
AAAGTTGTTGCTGTGCAAAAAAATACCTATGGCCAATTTCACACCGGCGATTCTTACATT
ACAATGGAGAATAAAAATAAGCAACTTTCATGGGATGTTCATTTTTGGCTTGGACTTGAA
ACAACGCAAGATGAGGCAGGTGCTGCTGCAATTTACACTGTACAACTTGATGATGCTCTT
GGAGGAGCACCAGTTCAACATCGTGAAGTTCAAGAGCAAGAATCACAACTTTTCTTAGGA
TATTTCAAGAGCAGTGGTGGAATTAAATATTTGCCTGGTGGTGTTGCGAGCGGATTTAGA
AAAACAGAAATAAATGCAATTGGTGAGAAACGCCTATTTCAAGTAAAAGGAAAGAAAAAT
GTTCGCGTTCGTCAAGTTGATTTGACAATTGGGTCAATGAATAAAGGCGATTGCTTTGTT
CTTGATGCTGGCAATAAAGTCTATATTTATGTTGGACCAAAAGCTAAACGAGTTGAGAAA
ATGAAGGCAACAAGTTTTGCAAATCAAGTGCGTGATGAAGACCATCATGGACGATCATCT
GTTGAAATTGTTGATGAATTTTCAAATGATGTTGATAAGGCTCATTTCTTTGAAGTGCTT
GGTTCAGGTTCAATTGAACAAGTGCCAGATGAAAGCGTTGCTGAAGATGATGAGGCATTT
GAAAGAAAAGAAGAAGCTGCAACAACTTTGAGTAAAGTTAGTGATGCATCAGGAAGCTTG
AAAGTTGAACAAATTAATCAAAAACCATTGAAACAAGAAATGCTGAATACTAACGATTGC
TTTATTCTTGATACTGGAAGTGGTATTTATGTTTGGATTGGTAAGAAATCAACTGAACAA
GAGAAAAAACAAGCAATGTCACGTGCTCAGGGATTTATTCAAACGAAGAAATATCCTGCA
TGGACTAAAGTAACAAAAATCAATGAATTCACCGAAACAACTCCATTCAAGCAATATTTC
TTTACATGGCGTGATCATGGTGCATCACATTCTCGCCTTATTTGA

>g1280.t7 Gene=g1280 Length=387
MWKLCCVLIIAISALNSIECATTQSRPSQVVIPQAFINAGKTKGLEIWRIENFKVVAVQK
NTYGQFHTGDSYITMENKNKQLSWDVHFWLGLETTQDEAGAAAIYTVQLDDALGGAPVQH
REVQEQESQLFLGYFKSSGGIKYLPGGVASGFRKTEINAIGEKRLFQVKGKKNVRVRQVD
LTIGSMNKGDCFVLDAGNKVYIYVGPKAKRVEKMKATSFANQVRDEDHHGRSSVEIVDEF
SNDVDKAHFFEVLGSGSIEQVPDESVAEDDEAFERKEEAATTLSKVSDASGSLKVEQINQ
KPLKQEMLNTNDCFILDTGSGIYVWIGKKSTEQEKKQAMSRAQGFIQTKKYPAWTKVTKI
NEFTETTPFKQYFFTWRDHGASHSRLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
26 g1280.t7 CDD cd11290 gelsolin_S1_like 36 147 6.86487E-57
24 g1280.t7 CDD cd11289 gelsolin_S2_like 162 254 1.4203E-35
25 g1280.t7 CDD cd11292 gelsolin_S3_like 278 373 6.77877E-43
17 g1280.t7 Gene3D G3DSA:3.40.20.10 Severin 32 160 4.0E-43
18 g1280.t7 Gene3D G3DSA:3.40.20.10 Severin 161 265 1.3E-27
16 g1280.t7 Gene3D G3DSA:3.40.20.10 Severin 274 385 3.1E-35
4 g1280.t7 PANTHER PTHR11977 VILLIN 26 385 6.8E-140
5 g1280.t7 PANTHER PTHR11977:SF55 GELSOLIN 26 385 6.8E-140
10 g1280.t7 PRINTS PR00597 Gelsolin family signature 62 78 1.7E-15
9 g1280.t7 PRINTS PR00597 Gelsolin family signature 85 103 1.7E-15
7 g1280.t7 PRINTS PR00597 Gelsolin family signature 118 138 1.7E-15
8 g1280.t7 PRINTS PR00597 Gelsolin family signature 305 327 1.7E-15
6 g1280.t7 PRINTS PR00597 Gelsolin family signature 334 353 1.7E-15
1 g1280.t7 Pfam PF00626 Gelsolin repeat 52 132 3.6E-12
3 g1280.t7 Pfam PF00626 Gelsolin repeat 173 238 1.7E-10
2 g1280.t7 Pfam PF00626 Gelsolin repeat 301 357 2.2E-14
20 g1280.t7 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
21 g1280.t7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
22 g1280.t7 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
23 g1280.t7 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
19 g1280.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 387 -
30 g1280.t7 SMART SM00262 VILL_6 43 138 6.2E-19
28 g1280.t7 SMART SM00262 VILL_6 161 256 2.1E-24
29 g1280.t7 SMART SM00262 VILL_6 282 376 1.4E-30
13 g1280.t7 SUPERFAMILY SSF55753 Actin depolymerizing proteins 34 173 2.57E-33
11 g1280.t7 SUPERFAMILY SSF55753 Actin depolymerizing proteins 162 256 2.24E-19
12 g1280.t7 SUPERFAMILY SSF55753 Actin depolymerizing proteins 277 378 1.37E-24
15 g1280.t7 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
27 g1280.t7 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 21 -
14 g1280.t7 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