General information for g1279.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Gelsolin, cytoplasmic.
Parent gene
- The parent gene g1279 is located on chr_3: 9417989..9421548 (- 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 | g1279 | g1279.t8 | TTS | g1279.t8 | 9417096 | 9417096 |
| chr_3 | g1279 | g1279.t8 | isoform | g1279.t8 | 9417233 | 9421548 |
| chr_3 | g1279 | g1279.t8 | exon | g1279.t8.exon1 | 9417233 | 9417422 |
| chr_3 | g1279 | g1279.t8 | cds | g1279.t8.CDS1 | 9417324 | 9417422 |
| chr_3 | g1279 | g1279.t8 | exon | g1279.t8.exon2 | 9417483 | 9417569 |
| chr_3 | g1279 | g1279.t8 | cds | g1279.t8.CDS2 | 9417483 | 9417569 |
| chr_3 | g1279 | g1279.t8 | exon | g1279.t8.exon3 | 9417638 | 9418702 |
| chr_3 | g1279 | g1279.t8 | cds | g1279.t8.CDS3 | 9417638 | 9418201 |
| chr_3 | g1279 | g1279.t8 | exon | g1279.t8.exon4 | 9421190 | 9421548 |
| chr_3 | g1279 | g1279.t8 | TSS | g1279.t8 | NA | NA |
Sequences
>g1279.t8 Gene=g1279 Length=1701
TTTCCATCGTGGAAGAATTTTTTTTGGAAAATTTGTTTACAATTTGAATTTTTGAAAAAT
AACCGTCATATTCTCAAGAAATTTCTTTTATTTTGCAAACATGTCTTGATTGATCAATCA
ATAGCATGATTCATGTTAATTTTGATAATAAATTTACACTTAAAAGAGAATTACTCTCCT
AATGTTATTTATTTCTCTCATACAATTTTTGTATAAAAACTCTCAAGTTTACTCAAAAAT
CAACTGTACATCACTCATCACTGTTCAGTCGGTTGTAAACTTCTGTAGTGTAAAAGTGAA
AATTAATAAAAACGCCGGTATCAAGCTACTTTACTTGTTTTAGATTTCCAAAGTCAAAGA
AAGCGACAAATATGTGGAAATTGCTGTTGACTATTTTAAGGTATTTTATCATACTTGACT
CCTAAGAAAATATTTTTTTTACTAAAAATTTATTTATTCTACCTAGTTTACATAAATTTA
TAAATTGTCAAGAATTTAATATATCACATTTACATAAAACTAGACCGAAGGACTATAGTT
TTAGTTTCATTCCTGATAATGGAGAGGGTGAAACTGAAATTTTCAGATTTATAAATTCAA
ACATGTTTTCTGTTGAATTAAAAGATTATGGCGTTTTTGATGGTGGTGATTCTTATGTCG
TAAAATATAAATACAAAGATAAAAATTATAAAGACAGCTATATTATTTATAGTTGGAAAG
GAATCAATTCCAACAGATTTGAAAAAGTTGGAGCAATTTTCTTTTCCGTGAAAATGAAAA
ATGATTTGACAAAACGAAAGTAAGTTGTCATATTGATCTATCTATAATGCACTAATTTTG
ATATAAAATTAAGATTCATTATGGCTGGATTACCAACTAAGCTAAGCAATGACACAGAAG
ACATTTTTGTGAAGCAAATTCAAATAGATCAAAGTTGTGAAACTCCACATTTTTTAAAAA
TTTTTAAAGGCAAAACTTTATTTACTGGTATTTTTAATCAAGATTCTTATGATATTGATG
GAATAAGGCTATTTAGAATTCGTGGAACTAATGAGGGAAATGTTCGCACTACTCAAGTTG
AAAAAATAGCTAAATCGCTTGCATCAGATGATGTTTTTATTTTAGACACACCAGCAAATA
CTTTTGTTTGGTATGGTGATGGTGCAAACGACTTTGAGTACTCAACAGGACTTCTTATGA
GTAAAAGATTCTCTCAAGACCGAAATGCAATTGTTATTTATGAAGGTGAAGAGCCAGATG
AATTTTGGAATGCATTAGGAGGAAAGGATGATTATGACCATGAAATCGATCCATCATCTT
CATCATTTGAAATACGTTTTTTTAAATGTACTAGATTTATAACACACCTTGGGGAAACTT
TCATTTTTGATGACCTTGATTCATTTTCCGATGAGATTTTAGTGATTGATGATGGTAATG
AAAATGTGTACTTTTATATAGGAGAGAAAACTCATGAAATACAAATAAAACAATGTTTCA
TTGAAACAAAAGCTTACATTGAAACTGAACCAACTGGACGATTTAAGAATTTGGAACCAA
TAATTCTTCAAAGAGGTGAAATGTATTATTATTTATTTATCTCTAATTAAAATTTTAATC
TTATTTCTTATAGGTAATGTAACAAAAGCTTTCAAAAGATTATTCTCATGTAATGATATT
TTTTGGGATTTACGACATTAA
>g1279.t8 Gene=g1279 Length=249
MAGLPTKLSNDTEDIFVKQIQIDQSCETPHFLKIFKGKTLFTGIFNQDSYDIDGIRLFRI
RGTNEGNVRTTQVEKIAKSLASDDVFILDTPANTFVWYGDGANDFEYSTGLLMSKRFSQD
RNAIVIYEGEEPDEFWNALGGKDDYDHEIDPSSSSFEIRFFKCTRFITHLGETFIFDDLD
SFSDEILVIDDGNENVYFYIGEKTHEIQIKQCFIETKAYIETEPTGRFKNLEPIILQRGE
MYYYLFISN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g1279.t8 | CDD | cd11288 | gelsolin_S5_like | 53 | 144 | 2.93554E-30 |
| 13 | g1279.t8 | Coils | Coil | Coil | 249 | 249 | - |
| 12 | g1279.t8 | Gene3D | G3DSA:3.40.20.10 | Severin | 53 | 147 | 1.6E-23 |
| 11 | g1279.t8 | Gene3D | G3DSA:3.40.20.10 | Severin | 148 | 241 | 2.5E-5 |
| 2 | g1279.t8 | PANTHER | PTHR11977 | VILLIN | 16 | 227 | 8.2E-35 |
| 6 | g1279.t8 | PRINTS | PR00597 | Gelsolin family signature | 18 | 38 | 7.0E-24 |
| 5 | g1279.t8 | PRINTS | PR00597 | Gelsolin family signature | 68 | 88 | 7.0E-24 |
| 7 | g1279.t8 | PRINTS | PR00597 | Gelsolin family signature | 128 | 147 | 7.0E-24 |
| 4 | g1279.t8 | PRINTS | PR00597 | Gelsolin family signature | 179 | 201 | 7.0E-24 |
| 3 | g1279.t8 | PRINTS | PR00597 | Gelsolin family signature | 208 | 227 | 7.0E-24 |
| 1 | g1279.t8 | Pfam | PF00626 | Gelsolin repeat | 69 | 136 | 4.3E-5 |
| 15 | g1279.t8 | SMART | SM00262 | VILL_6 | 55 | 142 | 1.0E-17 |
| 9 | g1279.t8 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 15 | 64 | 2.8E-5 |
| 10 | g1279.t8 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 46 | 152 | 1.4E-23 |
| 8 | g1279.t8 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 131 | 223 | 9.82E-6 |
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. There were no conditions that were differentially expressed