General information for g1921.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1921 is located on chr_3: 13865011..13865896 (+ 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 | g1921 | g1921.t3 | TSS | g1921.t3 | 13864724 | 13864724 |
| chr_3 | g1921 | g1921.t3 | isoform | g1921.t3 | 13865011 | 13865896 |
| chr_3 | g1921 | g1921.t3 | exon | g1921.t3.exon1 | 13865011 | 13865896 |
| chr_3 | g1921 | g1921.t3 | cds | g1921.t3.CDS1 | 13865144 | 13865896 |
| chr_3 | g1921 | g1921.t3 | TTS | g1921.t3 | 13866060 | 13866060 |
Sequences
>g1921.t3 Gene=g1921 Length=886
AGTTAATAAACACCAAGATGATTCATGGAAACAAATTCCACAAGATGATGTATATATTCA
AAAATATTATCAATATAGAACTTTCACAGTTGAAGATGCAATCAAATGTCATCAAGAAAC
TCATCATCCAACGATGTATAATGTTCCAAATGCACCAATTTTAGCTGAAATTGAAATAAA
CATGCAAGGCGAAAAGATTACAAGATTCGTAGATAACTTTCATCGAATGGCTCCGATAAA
TTATAAATTTAATCATGGCGAAGAAAGAACAGTTCTCGCCTTTGCTAAAGGACAAGAATA
CATTGATATAGCTAAAAAAGCTGGTGCAACGCTCGCTGGAGACGGAGGTTTAGTTAAAAG
TATTCAAAATGGCGATTTATCTTTCAATGATTTTCAATTTATTGTTGCGCATTCAAATAT
TCTTCACGAAATTATGCCTATTAGAGGTTTACTAAAAAGGCGATTTCCAAATCCTAAAAA
TGGAACATTAGGTACTGATTTAGAAGAAATGGTTCAAAAGTTTCTTAATGGAATCACATA
TAGTGTAAAGAAAGATGAGAATCAACAAAATTTTGCAAATCTTACCGCTCAGTTTGGTAC
TCTCGATATGGATGTAAAGCATTTAGAAGATAATTTAGCATCATTGCTACAAGACATTAA
TAAAATGCGTCCAAAACGTGAAGGAAAATTTATTACAAGAGTTTACATTAACAGTCCACC
ATCATCAGAAAAATTGAAAATTAATCCCTTCGTGTACGTGCCAGAAGAGCAAACCTTTGC
AAAAAAGAAAACGTCAGCGAAAGTTGCAGAAGAGGAAGACGAAGATGAAGCGACAGCAGC
AGAAGACGAGGAAGAAGTAAAAGAAAAAAAGGAAGCTGTTAATTAA
>g1921.t3 Gene=g1921 Length=250
MYNVPNAPILAEIEINMQGEKITRFVDNFHRMAPINYKFNHGEERTVLAFAKGQEYIDIA
KKAGATLAGDGGLVKSIQNGDLSFNDFQFIVAHSNILHEIMPIRGLLKRRFPNPKNGTLG
TDLEEMVQKFLNGITYSVKKDENQQNFANLTAQFGTLDMDVKHLEDNLASLLQDINKMRP
KREGKFITRVYINSPPSSEKLKINPFVYVPEEQTFAKKKTSAKVAEEEDEDEATAAEDEE
EVKEKKEAVN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1921.t3 | CDD | cd00403 | Ribosomal_L1 | 35 | 197 | 2.57188E-26 |
| 5 | g1921.t3 | Gene3D | G3DSA:3.40.50.790 | - | 41 | 133 | 7.8E-19 |
| 4 | g1921.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 216 | 250 | - |
| 2 | g1921.t3 | PANTHER | PTHR36427 | 54S RIBOSOMAL PROTEIN L1, MITOCHONDRIAL | 5 | 199 | 7.4E-27 |
| 1 | g1921.t3 | Pfam | PF00687 | Ribosomal protein L1p/L10e family | 35 | 197 | 9.4E-13 |
| 3 | g1921.t3 | SUPERFAMILY | SSF56808 | Ribosomal protein L1 | 35 | 197 | 2.49E-28 |
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.
