General information for g11306.t34
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Calcium homeostasis endoplasmic reticulum protein.
Parent gene
- The parent gene g11306 is located on chr_1: 15510949..15511635 (- 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 | g11306 | g11306.t34 | isoform | g11306.t34 | 15510083 | 15511635 |
| chr_1 | g11306 | g11306.t34 | exon | g11306.t34.exon1 | 15510083 | 15510473 |
| chr_1 | g11306 | g11306.t34 | cds | g11306.t34.CDS1 | 15510397 | 15510473 |
| chr_1 | g11306 | g11306.t34 | exon | g11306.t34.exon2 | 15510782 | 15510944 |
| chr_1 | g11306 | g11306.t34 | cds | g11306.t34.CDS2 | 15510782 | 15510944 |
| chr_1 | g11306 | g11306.t34 | exon | g11306.t34.exon3 | 15511167 | 15511366 |
| chr_1 | g11306 | g11306.t34 | cds | g11306.t34.CDS3 | 15511167 | 15511366 |
| chr_1 | g11306 | g11306.t34 | exon | g11306.t34.exon4 | 15511428 | 15511635 |
| chr_1 | g11306 | g11306.t34 | cds | g11306.t34.CDS4 | 15511428 | 15511635 |
| chr_1 | g11306 | g11306.t34 | TSS | g11306.t34 | 15511705 | 15511705 |
| chr_1 | g11306 | g11306.t34 | TTS | g11306.t34 | NA | NA |
Sequences
>g11306.t34 Gene=g11306 Length=962
ATGGCGATGCCTTTAAGGCCAGCTGATTCGCAATTAGCAACTATAATTGATAGACTTGCA
GAATTCGTTGCAAGAAACGGACCCGAATTTGAGAAAATGACAAAAATTAAACAACAAAAC
AATGAAAGATTTTCATTTTTACAACCGGGTGAACTGTATAATGATTATTATCAAAGCAAA
GTAATGGAGGAAAGAAGAAAGATTATGGGAACATTATCTCCAAATAATAATTTTCCTCAA
CAGCAACAGTCCAACATTTGGTTGACGACGACAGGTAGCAATGGAAGTTCCCATAATACT
GTGGCACAAGCAAATATTGCAGCTCAAATTGAAGAAATAAATTCACAACAAATGAGACTT
CGTGAACAGCTAATTGAAAGTGAAAAGAACTTGAACGCACAACATCAGGTCTTGTTGCAA
CAACAAAAAAATGAAATTGAGGAGACAATATCTAAAGCACAAATGGAACATATAAAGTTA
TGTGCTCAAGAAAACGAGATATCGCTAACTGAACTTGATGAGATTCTTCAGCCAATAATT
GATTCCTGCACAAAAGACAGTATTGCAAATGGAAAAGCATCGATATTGCAACAAGCAACA
AATTCAGCTAAAAGACAAATTATCTCGCAATATATTCTAAAAAAGTAACATACCTTATTC
TTGAAAAAAAAAATTCTTTGTTCCAGCGTGGGTCTAAAAAGTTAATATACCCAAACATTT
ATTTTCCTTTACGAAAACTCTCATCATTTTCTCTTGTTGATTTTTTCTCAAATTCAAAAC
TGAGCTCGCGAATATCTCAATGACAGTTCTCCCTAAATATAATTTTCTTTGCATATTTTA
AAAATTGTTTTGAAACAACATTTTTTGCATTAATGACATTTTACTAAAAGAAAAACCTAA
TTTAAAAGAATCAATCAGAATAAGAAAGAAAACAAGAAAAACAAAATTCCATTTCTTTTT
TT
>g11306.t34 Gene=g11306 Length=215
MAMPLRPADSQLATIIDRLAEFVARNGPEFEKMTKIKQQNNERFSFLQPGELYNDYYQSK
VMEERRKIMGTLSPNNNFPQQQQSNIWLTTTGSNGSSHNTVAQANIAAQIEEINSQQMRL
REQLIESEKNLNAQHQVLLQQQKNEIEETISKAQMEHIKLCAQENEISLTELDEILQPII
DSCTKDSIANGKASILQQATNSAKRQIISQYILKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11306.t34 | Coils | Coil | Coil | 110 | 156 | - |
| 5 | g11306.t34 | Gene3D | G3DSA:1.10.10.790 | - | 2 | 70 | 1.7E-20 |
| 2 | g11306.t34 | PANTHER | PTHR12323 | SR-RELATED CTD ASSOCIATED FACTOR 6 | 4 | 215 | 7.1E-43 |
| 1 | g11306.t34 | Pfam | PF01805 | Surp module | 14 | 62 | 3.8E-16 |
| 7 | g11306.t34 | ProSiteProfiles | PS50128 | SURP motif repeat profile. | 15 | 57 | 17.234 |
| 4 | g11306.t34 | SMART | SM00648 | surpneu2 | 13 | 66 | 1.6E-18 |
| 3 | g11306.t34 | SUPERFAMILY | SSF109905 | Surp module (SWAP domain) | 4 | 64 | 7.46E-19 |
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:0006396 | RNA processing | BP |
| GO:0003723 | RNA binding | MF |
| GO:0006874 | cellular calcium ion homeostasis | BP |
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.
