General information for g9292.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein sarah.
Parent gene
- The parent gene g9292 is located on chr_1: 1552722..1553320 (- 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 | g9292 | g9292.t1 | TTS | g9292.t1 | 1551968 | 1551968 |
| chr_1 | g9292 | g9292.t1 | isoform | g9292.t1 | 1552254 | 1553010 |
| chr_1 | g9292 | g9292.t1 | exon | g9292.t1.exon1 | 1552254 | 1552645 |
| chr_1 | g9292 | g9292.t1 | cds | g9292.t1.CDS1 | 1552254 | 1552645 |
| chr_1 | g9292 | g9292.t1 | exon | g9292.t1.exon2 | 1552719 | 1553010 |
| chr_1 | g9292 | g9292.t1 | cds | g9292.t1.CDS2 | 1552719 | 1553010 |
| chr_1 | g9292 | g9292.t1 | TSS | g9292.t1 | 1553301 | 1553301 |
Sequences
>g9292.t1 Gene=g9292 Length=684
ATGGAGAATGAAAGTGAGTATTTCGTAAATCAAGTGGACGGCTTGCCAAATGATCATCCC
GCGTTACCACTAGAATGTGATGTTTCGGAAAGTACCGAAATTGATCCAGAATCACTGGAT
GATCTGCCTACATCATTGATCGTCACAAATATTCACTCGGAAGTTTTTCATTCTGATGAA
TTAAAGGCAGAAATTGAAAATGTTTTTCGGGAATTTTCCGATGAGGTCACATTTCAGTGG
CTAAAGAGCTTTCGTCGACTCCGTGTTAATTATGACAATGCACTTTCAGCTGCAAATGCT
CGCATACGACTGCATCAATATCGTGTTAATAAGTCGGTTATTAATTGCTATTTTGCACAG
CCAGTCACACCGATCTCCAATAAAAGTCTCCAACCGCCGGCACCATCAAAACAATTCCTT
ATTAGTCCGCCATCATCGCCACCTGCTGGTTGGGCACAAGCTGAAGAATGCGAGCCATTT
ATTTTCAATCATGATTTGCTTGCTGCATTAGCAAATCTTAATCCAGGTGAAGTGCATGAA
ATTCATGCTGCTTCTGAGACACAACCAGGTATAATGGTGCATACTGCAATTGTTGCACAA
GATAGTAGCAGCACTGATGAAAGTGATGATGGAAAGAAAGGAAAAGTGTCCATAGCGCAT
ACACGATGTCCTGAGCGAACATAA
>g9292.t1 Gene=g9292 Length=227
MENESEYFVNQVDGLPNDHPALPLECDVSESTEIDPESLDDLPTSLIVTNIHSEVFHSDE
LKAEIENVFREFSDEVTFQWLKSFRRLRVNYDNALSAANARIRLHQYRVNKSVINCYFAQ
PVTPISNKSLQPPAPSKQFLISPPSSPPAGWAQAEECEPFIFNHDLLAALANLNPGEVHE
IHAASETQPGIMVHTAIVAQDSSSTDESDDGKKGKVSIAHTRCPERT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9292.t1 | CDD | cd12434 | RRM_RCAN_like | 46 | 120 | 1.78444E-29 |
| 6 | g9292.t1 | Gene3D | G3DSA:3.30.70.330 | - | 41 | 141 | 7.7E-34 |
| 5 | g9292.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 200 | 227 | - |
| 4 | g9292.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 205 | 227 | - |
| 2 | g9292.t1 | PANTHER | PTHR10300 | CALCIPRESSIN | 29 | 226 | 1.7E-61 |
| 1 | g9292.t1 | Pfam | PF04847 | Calcipressin | 55 | 225 | 8.5E-37 |
| 3 | g9292.t1 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 40 | 143 | 2.28E-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:0019722 | calcium-mediated signaling | BP |
| GO:0003676 | nucleic acid 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.
