General information for g1278.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Gelsolin.
Parent gene
- The parent gene g1278 is located on chr_3: 9416754..9424233 (- strand)
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.t20 | isoform | g1278.t20 | 9413810 | 9416754 |
| chr_3 | g1278 | g1278.t20 | exon | g1278.t20.exon1 | 9413810 | 9414567 |
| chr_3 | g1278 | g1278.t20 | cds | g1278.t20.CDS1 | 9413812 | 9414567 |
| chr_3 | g1278 | g1278.t20 | exon | g1278.t20.exon2 | 9414871 | 9414924 |
| chr_3 | g1278 | g1278.t20 | cds | g1278.t20.CDS2 | 9414871 | 9414924 |
| chr_3 | g1278 | g1278.t20 | exon | g1278.t20.exon3 | 9416695 | 9416754 |
| chr_3 | g1278 | g1278.t20 | cds | g1278.t20.CDS3 | 9416695 | 9416754 |
| chr_3 | g1278 | g1278.t20 | TSS | g1278.t20 | 9416877 | 9416877 |
| chr_3 | g1278 | g1278.t20 | TTS | g1278.t20 | NA | NA |
Sequences
>g1278.t20 Gene=g1278 Length=872
ATGCATGTAGCATTTGAAAAAGCTGGTCAGAAAAAAGGCCTCGAAATTTGGAGAATTGAA
AATTTTGAGCCTGTTCCTTATCCAAAGAAAGATTATGGCAAATTTTACACTGGCACGATG
GAAAGTAAGAGTAGAGCACTTTCATGGGATGTTCATTTTTGGCTTGGACTTGAAACAACG
CAAGATGAGGCAGGTGCTGCAGCAATTTTTACTGTCCAACTTGATGATGCTCTTGGCGGA
GCACCAATTCAACATCGTGAAGTTCAAGAACATGAGTCACAACTTTTTCTAAATTATTTC
AAGAAAAATGGCATTCGTTATATGCCTGGTGGTGTTGCGAGCGGTTTCAACAATGTTGAA
ATAAATGCCGCTGGTGAAAAACGTTTATTCCAAGTGAAAGGAAAGAAAAATATTCGCGTG
CGTCAAGTTGCTCTCTCGGTTAATTCAATGAATAAAGGCGATTGCTTTATTCTCGATGCT
GGTGATGAGATTTTTGTTTATGTCGGTGCTAAAGCAAAGCGAGCAGAAAAAATTAAAGCA
ATTAGTGCTGCACATCAAATTCGTGATCAAGACCATAATGGACGCGCTTCAATTGAAATT
ATTGATGAATTCTCTAGTGAACACGATGTTCATAACTTTTTCAAAGTTCTTGGTTCAGGC
TCACCTGATGAAGTGACAGATGAAAGCGAAGATGATGAAGCATTTGAAAGAAGTCAAGAA
AGTGAAACAACTCTTTATACTGTCAGTGATGCATCAGGAAAATTGACAATTGAACCAATC
GCTCAAAAACCACTTAGACAAGAAATGTTGAATACTAACGATTGCTTTATTCTCGATACT
GGTCATGGAATTTTCGTTTGGGTTGGAAAAGG
>g1278.t20 Gene=g1278 Length=290
MHVAFEKAGQKKGLEIWRIENFEPVPYPKKDYGKFYTGTMESKSRALSWDVHFWLGLETT
QDEAGAAAIFTVQLDDALGGAPIQHREVQEHESQLFLNYFKKNGIRYMPGGVASGFNNVE
INAAGEKRLFQVKGKKNIRVRQVALSVNSMNKGDCFILDAGDEIFVYVGAKAKRAEKIKA
ISAAHQIRDQDHNGRASIEIIDEFSSEHDVHNFFKVLGSGSPDEVTDESEDDEAFERSQE
SETTLYTVSDASGKLTIEPIAQKPLRQEMLNTNDCFILDTGHGIFVWVGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g1278.t20 | CDD | cd11290 | gelsolin_S1_like | 5 | 111 | 0e+00 |
| 18 | g1278.t20 | CDD | cd11289 | gelsolin_S2_like | 126 | 218 | 0e+00 |
| 17 | g1278.t20 | Gene3D | G3DSA:3.40.20.10 | Severin | 1 | 124 | 0e+00 |
| 15 | g1278.t20 | Gene3D | G3DSA:3.40.20.10 | Severin | 125 | 231 | 0e+00 |
| 16 | g1278.t20 | Gene3D | G3DSA:3.40.20.10 | Severin | 236 | 290 | 0e+00 |
| 4 | g1278.t20 | PANTHER | PTHR11977 | VILLIN | 1 | 290 | 0e+00 |
| 5 | g1278.t20 | PANTHER | PTHR11977:SF55 | GELSOLIN | 1 | 290 | 0e+00 |
| 8 | g1278.t20 | PRINTS | PR00597 | Gelsolin family signature | 50 | 68 | 0e+00 |
| 7 | g1278.t20 | PRINTS | PR00597 | Gelsolin family signature | 83 | 103 | 0e+00 |
| 9 | g1278.t20 | PRINTS | PR00597 | Gelsolin family signature | 138 | 158 | 0e+00 |
| 6 | g1278.t20 | PRINTS | PR00597 | Gelsolin family signature | 267 | 289 | 0e+00 |
| 3 | g1278.t20 | Pfam | PF00626 | Gelsolin repeat | 44 | 97 | 0e+00 |
| 2 | g1278.t20 | Pfam | PF00626 | Gelsolin repeat | 137 | 202 | 0e+00 |
| 1 | g1278.t20 | Pfam | PF00626 | Gelsolin repeat | 263 | 290 | 6e-07 |
| 14 | g1278.t20 | SMART | SM00262 | VILL_6 | 12 | 103 | 0e+00 |
| 13 | g1278.t20 | SMART | SM00262 | VILL_6 | 125 | 220 | 0e+00 |
| 11 | g1278.t20 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 5 | 137 | 0e+00 |
| 12 | g1278.t20 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 121 | 205 | 0e+00 |
| 10 | g1278.t20 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 236 | 290 | 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.
