General information for g11782.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L7.
Parent gene
- The parent gene g11782 is located on chr_1: 18395489..18396300 (- 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 | g11782 | g11782.t1 | TTS | g11782.t1 | 18395400 | 18395400 |
| chr_1 | g11782 | g11782.t1 | isoform | g11782.t1 | 18395489 | 18396300 |
| chr_1 | g11782 | g11782.t1 | exon | g11782.t1.exon1 | 18395489 | 18395951 |
| chr_1 | g11782 | g11782.t1 | cds | g11782.t1.CDS1 | 18395489 | 18395951 |
| chr_1 | g11782 | g11782.t1 | exon | g11782.t1.exon2 | 18396014 | 18396300 |
| chr_1 | g11782 | g11782.t1 | cds | g11782.t1.CDS2 | 18396014 | 18396300 |
| chr_1 | g11782 | g11782.t1 | TSS | g11782.t1 | 18396365 | 18396365 |
Sequences
>g11782.t1 Gene=g11782 Length=750
ATGGAGAAATACGCTGTACCTAATAAATTACCTGCAAAGCAAGTAAATATCTTGGCACAT
CGAAAACGAAGAATATCACAAAAACAGGCTGCATTGCTTAAGAAACCAACAAAAAAGAAG
ATTAACATAAAGAGTGATGAACATTTTAAGAAACCAGAATTTTTTGTCGCAGAATATCGT
AAAGCAGAACGAGATGATAAACGAATATATCGTGAATTAATGAGAAATGGCCTCAAACGA
AATTATATGAAAGATGGAAGTTTAATGCTTGTTCTTAGACATCGAGGAACACACATTGCT
TCGAAACAGTGTATAAGCTTATTAAATCAAATTGGCTTAAAAAGACTACATCAAGCTGTA
TTTCTTAAAGTCACTGCAGATACGAAGGCTATACTCAGTTTGATTGAGCCGTATACAATT
TTTGGAACACCGAATTCAAATACTGTTCGTGAACTCATCTTTAAGTATGGATTTATTAAT
TATAAAGATAAGAAAACAGCAATTTCAAGTAACACACAAATAGAAGAATTGTTGGGCGAT
TGTGGAATAATTTGTGTTGAAGACATTCTACATGAAATAACTACTGTTGGTGCCAATTTT
GATAGAATTACAAAATTACTCTATCCTTTCATGCTACCAAATCCAAAAGATGGTTGGAAA
GAAGGAAAGAAAGGACTTAGTTTTCAAAAAGGTGGCATTGCTGGTTATCGTGGAGAAAAA
ATTAATGATTTTATCAAAACCATATTGTAA
>g11782.t1 Gene=g11782 Length=249
MEKYAVPNKLPAKQVNILAHRKRRISQKQAALLKKPTKKKINIKSDEHFKKPEFFVAEYR
KAERDDKRIYRELMRNGLKRNYMKDGSLMLVLRHRGTHIASKQCISLLNQIGLKRLHQAV
FLKVTADTKAILSLIEPYTIFGTPNSNTVRELIFKYGFINYKDKKTAISSNTQIEELLGD
CGIICVEDILHEITTVGANFDRITKLLYPFMLPNPKDGWKEGKKGLSFQKGGIAGYRGEK
INDFIKTIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11782.t1 | CDD | cd01657 | Ribosomal_L7_archeal_euk | 88 | 246 | 0 |
| 3 | g11782.t1 | Gene3D | G3DSA:3.30.1390.20 | - | 91 | 237 | 0 |
| 4 | g11782.t1 | Gene3D | G3DSA:1.10.15.30 | - | 145 | 207 | 0 |
| 1 | g11782.t1 | PANTHER | PTHR11524 | 60S RIBOSOMAL PROTEIN L7 | 8 | 247 | 0 |
| 2 | g11782.t1 | SUPERFAMILY | SSF55129 | Ribosomal protein L30p/L7e | 88 | 247 | 0 |
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 transcript has been annotated with K02937 (large subunit ribosomal protein L7e)
Pathway
- This transcript belongs to the following pathways
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.
