General information for g3983.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3983 is located on chr_3: 29380230..29381174 (+ 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 | g3983 | g3983.t1 | TSS | g3983.t1 | 29379540 | 29379540 |
| chr_3 | g3983 | g3983.t1 | isoform | g3983.t1 | 29380230 | 29381174 |
| chr_3 | g3983 | g3983.t1 | exon | g3983.t1.exon1 | 29380230 | 29381174 |
| chr_3 | g3983 | g3983.t1 | cds | g3983.t1.CDS1 | 29380230 | 29381174 |
| chr_3 | g3983 | g3983.t1 | TTS | g3983.t1 | 29381746 | 29381746 |
Sequences
>g3983.t1 Gene=g3983 Length=945
ATGCCACGTTCACGAAGCCGTTCTAAAGACAGAAGCAGAAGAAGTCGTTCACGAGATAAA
GATAGAAAGCGAAGAGATCGAGAAAGAAGACGTTCACGATCAAAATCATATGACAGACTT
GAAAAGGATAAAATTCGTCGACGCTCAAGATCACGTTCATACGAGAAAAGAAACAGAGAT
CGAAGGCGGAGAGATAGATCAAGATCTTATGATAGAAAAGATCATCGATATCGTTCTAAA
TCGCATGATAGAAGCAAAGACCGGTATAGAGATAGATATTCAAGTGATAATTCAGAAAAA
AGATTTCTACAAAGTTCATCAACAGCTGCTTCAAATTCTGTAAAACCAATTGTCATTATT
GCCAATACACATTCTAAGGGAAATAAGCATAAAACAAGTATAGACCAGAGTCATCTAAAA
CGTGATCATCGAGAAAGTTTTGAAATTTCAAATGAATTTTCACAAGAGGGTTTTGAGCAA
TTCAGTAAAGATCATGGTATTGATTTTTCAAAAATAGAAACAGATGAAGATCGAGAGGCT
GTGCATGAGAAAATGCAAGAGCTTTTAAAAGCACATTTTGCTGCACAAGGCAAAATTTAT
CCACCACCTCCAAAAGAAGAGAGACAGCTACCTATAAATGCTACAGGATTTGTTAATGAT
GGATCTTTTCTTGAGCAATTTAAGAAAATGCAAGAAGAACAAAAGAAACAGGCTGAACTT
GAACAGAAAAGAAAAGCTGAAAGTCTTTTGAATTTGCCAATCAGAAGACGAAGAGCAGGG
TTAATTTTAAAAACAGGTGTTGTAGCTAAAACAAAGCTAACAAATCAAGAGCGCTCCTCA
GATATGCCATCAAATGCATGGGGAATGTATATAAAAGAAGTTCAAAAATATAAAGGCTCT
TCATGCGATTCTGATGATTCTAAAAATAGACCACTTGTCAAATAA
>g3983.t1 Gene=g3983 Length=314
MPRSRSRSKDRSRRSRSRDKDRKRRDRERRRSRSKSYDRLEKDKIRRRSRSRSYEKRNRD
RRRRDRSRSYDRKDHRYRSKSHDRSKDRYRDRYSSDNSEKRFLQSSSTAASNSVKPIVII
ANTHSKGNKHKTSIDQSHLKRDHRESFEISNEFSQEGFEQFSKDHGIDFSKIETDEDREA
VHEKMQELLKAHFAAQGKIYPPPPKEERQLPINATGFVNDGSFLEQFKKMQEEQKKQAEL
EQKRKAESLLNLPIRRRRAGLILKTGVVAKTKLTNQERSSDMPSNAWGMYIKEVQKYKGS
SCDSDDSKNRPLVK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3983.t1 | Coils | Coil | Coil | 224 | 250 | - |
| 3 | g3983.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 111 | - |
| 4 | g3983.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 30 | - |
| 5 | g3983.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 31 | 48 | - |
| 7 | g3983.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 58 | 98 | - |
| 6 | g3983.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 126 | 145 | - |
| 2 | g3983.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 128 | 145 | - |
| 1 | g3983.t1 | PANTHER | PTHR34753 | TELOMERASE RNA COMPONENT INTERACTING RNASE | 243 | 314 | 7.8E-20 |
| 10 | g3983.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 116 | - |
| 11 | g3983.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 101 | - |
| 12 | g3983.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 102 | 110 | - |
| 13 | g3983.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 111 | 116 | - |
| 9 | g3983.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 117 | 314 | - |
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:0008409 | 5’-3’ exonuclease activity | MF |
| GO:0008408 | 3’-5’ exonuclease activity | MF |
| GO:0090503 | RNA phosphodiester bond hydrolysis, exonucleolytic | 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.
