General information for g9607.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-related protein 1.
Parent gene
- The parent gene g9607 is located on chr_1: 4262910..4263909 (- 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_1 | g9607 | g9607.t3 | isoform | g9607.t3 | 4261782 | 4263909 |
| chr_1 | g9607 | g9607.t3 | exon | g9607.t3.exon1 | 4261782 | 4262530 |
| chr_1 | g9607 | g9607.t3 | cds | g9607.t3.CDS1 | 4262387 | 4262530 |
| chr_1 | g9607 | g9607.t3 | exon | g9607.t3.exon2 | 4262590 | 4262826 |
| chr_1 | g9607 | g9607.t3 | cds | g9607.t3.CDS2 | 4262590 | 4262826 |
| chr_1 | g9607 | g9607.t3 | exon | g9607.t3.exon3 | 4262886 | 4263347 |
| chr_1 | g9607 | g9607.t3 | cds | g9607.t3.CDS3 | 4262886 | 4263347 |
| chr_1 | g9607 | g9607.t3 | exon | g9607.t3.exon4 | 4263409 | 4263583 |
| chr_1 | g9607 | g9607.t3 | cds | g9607.t3.CDS4 | 4263409 | 4263555 |
| chr_1 | g9607 | g9607.t3 | exon | g9607.t3.exon5 | 4263662 | 4263730 |
| chr_1 | g9607 | g9607.t3 | exon | g9607.t3.exon6 | 4263862 | 4263909 |
| chr_1 | g9607 | g9607.t3 | TSS | g9607.t3 | 4263984 | 4263984 |
| chr_1 | g9607 | g9607.t3 | TTS | g9607.t3 | NA | NA |
Sequences
>g9607.t3 Gene=g9607 Length=1740
ATGGAACCGTATGATGTAATTGTTAATCAACCAGTAGTTATTGATAATGGATCAGGAATA
ATTAAGGCTGGCTTTGCTGGTGATCAAATTCCTAAATGCATTTTTCCCAATTAGTAATGT
GGGACGACCAAAACATGTACGAGTGATGGCTGGTGCTTTAGAAGGAGATCTTTTTGTTGG
TCAAAGAGCTGATGATCATCGTGGACTTCTTAGCATAAAATATCCTATGGAACATGGTAT
AATAGAAGATTGGAATGATATGGAAAGAATCTGGACGCACATATATGGCAAAGACCAGCT
TTCTACTTTCTCAGAAGAACATCCGGTTCTTCTAACAGAAGCACCATTAAATCCTCGAAA
AAATCGTGAAAAGTCAGCAGAAATATTTTTTGAGACTTTCAACGTTCCTGCTCTCTTTGT
ATCAATGCAGGCTGTTTTAAGTTTGTATGCGACAGGAAGAGTGACTGGTGTGGTTTTGGA
TGCTGGTGATGGCGTTACTCATGCAGTTCCAATTTATGAAGGTTTTGCAATGCCTCACAG
TATCATGCGAACTGACCTTGCTGGACGTGATGTAACTCGCTACCTAAAAGCACTCATACG
AAAAGAAGGTTTCAATTTTCGCACTACTGCCGAATTCGAAATTGTTAAGATGATAAAAGA
AAAAGTTTGTTATTTGGCCACAAATCTTCAAAAAGAAGAAAATATGGACACAGATAAAAT
TGGCTATGTACTGCCTGATGGGAACACTTTAGAGATTGGACAAGCTCGTTTCAGAGCTCC
CGAAGTGCTTTTCAAACCTGATCTGATTGGTGAAGAATGTGAAGGTATTCATGAAGTATT
AATGTACTCAATTCAAAAATCAGATATGGATTTAAGAAAAATGTTATATCAAAACATTGT
ACTCTCTGGTGGTTCAACTCTCTTTAAAAACTTTGGAGATCGACTATTACAAGAGATTAA
AAAGAATGTTGCTAAAGACATGAAAATTAGAATCGCAGCTCCTCAAGAGAGACTTTATTC
AACATGGATGGGTGGCTCAATTTTAGCATCACTTGATACATTCAAAAAAATGTGGATATC
AAAAAGAGAATTTGATGAAGAAGGTCAACGTGCTGTTCATAGGAAGACATTCTAAAGTTA
AAATCATCTCAAATATATAATTTATTTTATAATGAAATGAAAAACAATAATGAATAAGTA
TAAAAAATAAGCATTTGTGGATAACTTTTAAAAGTTGAAAGCGCAAATATTCTTAAAAAA
ATCAACTGTCTATCTTAATCAAATTCACACAAATGAAAAGCGCCAAAACATCATTCAAAA
AAAGAAGGGATACTTATCAGCACTCAAACATTTTTAAAATAAAATAATTTTTCCTTCTAA
TGATATATAAAAAAGCTCGAAAACTTAAGCTCTTTTTCGTTCATTGTCCTTTTTAGTGCA
GCAACAGCATTTAGCATGATATAAAAAAATTTTTTTATTCCAATAATAATTGATACTGAT
CAATCAATTCGAGATTCCAAGTGTTAAAATAAAAAGCCTTTTTTGCTTATTTAAATTAAT
TATTATCGTATGAATTACTCACGCAATCAAATTGAATCTTCTATTTATTTTAATAAATTT
CAAACTACATACCTATATCATCAAAAAAACTTAATTTATCTTTGGATATATTTGAGTTTA
ACTCTTTATTTGTAGGATATAACATAATTTACATTTTAAATGAAAGATAAGAACAATATT
>g9607.t3 Gene=g9607 Length=329
MAGALEGDLFVGQRADDHRGLLSIKYPMEHGIIEDWNDMERIWTHIYGKDQLSTFSEEHP
VLLTEAPLNPRKNREKSAEIFFETFNVPALFVSMQAVLSLYATGRVTGVVLDAGDGVTHA
VPIYEGFAMPHSIMRTDLAGRDVTRYLKALIRKEGFNFRTTAEFEIVKMIKEKVCYLATN
LQKEENMDTDKIGYVLPDGNTLEIGQARFRAPEVLFKPDLIGEECEGIHEVLMYSIQKSD
MDLRKMLYQNIVLSGGSTLFKNFGDRLLQEIKKNVAKDMKIRIAAPQERLYSTWMGGSIL
ASLDTFKKMWISKREFDEEGQRAVHRKTF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g9607.t3 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 31 | 158 | 1.03597E-13 |
| 12 | g9607.t3 | Gene3D | G3DSA:3.30.420.40 | - | 2 | 320 | 1.1E-140 |
| 13 | g9607.t3 | Gene3D | G3DSA:3.30.420.40 | - | 96 | 292 | 1.1E-140 |
| 11 | g9607.t3 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 138 | 225 | 1.1E-140 |
| 2 | g9607.t3 | PANTHER | PTHR11937 | ACTIN | 1 | 328 | 7.6E-174 |
| 3 | g9607.t3 | PANTHER | PTHR11937:SF370 | ALPHA-CENTRACTIN | 1 | 328 | 7.6E-174 |
| 7 | g9607.t3 | PRINTS | PR00190 | Actin signature | 6 | 17 | 1.3E-29 |
| 5 | g9607.t3 | PRINTS | PR00190 | Actin signature | 18 | 40 | 1.3E-29 |
| 4 | g9607.t3 | PRINTS | PR00190 | Actin signature | 73 | 86 | 1.3E-29 |
| 8 | g9607.t3 | PRINTS | PR00190 | Actin signature | 98 | 117 | 1.3E-29 |
| 6 | g9607.t3 | PRINTS | PR00190 | Actin signature | 190 | 206 | 1.3E-29 |
| 1 | g9607.t3 | Pfam | PF00022 | Actin | 8 | 328 | 5.4E-114 |
| 15 | g9607.t3 | ProSitePatterns | PS01132 | Actins and actin-related proteins signature. | 62 | 74 | - |
| 16 | g9607.t3 | SMART | SM00268 | actin_3 | 1 | 329 | 3.7E-161 |
| 10 | g9607.t3 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 7 | 111 | 9.06E-35 |
| 9 | g9607.t3 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 104 | 329 | 1.43E-78 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
