General information for g1848.t39
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1848 is located on chr_3: 13284408..13285334 (- 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 | g1848 | g1848.t39 | isoform | g1848.t39 | 13283556 | 13284757 |
| chr_3 | g1848 | g1848.t39 | exon | g1848.t39.exon1 | 13283556 | 13283910 |
| chr_3 | g1848 | g1848.t39 | exon | g1848.t39.exon2 | 13283989 | 13284757 |
| chr_3 | g1848 | g1848.t39 | cds | g1848.t39.CDS1 | 13284408 | 13284632 |
| chr_3 | g1848 | g1848.t39 | TSS | g1848.t39 | 13285408 | 13285408 |
| chr_3 | g1848 | g1848.t39 | TTS | g1848.t39 | NA | NA |
Sequences
>g1848.t39 Gene=g1848 Length=1124
ATGATTGGCAACAAGGATGCGATGTAAATCCAAAAGTTGATGTGATTTTGAAAAGAATAG
GAATAAAAAATTTTACACATAAAGCTAGACCTATATCATACAAAGACTATGAAAAATTTG
ATTTTATGTTTGGAATGGATTATTTTCATATAGAAGACATGTTAAATGCTGCCGATGCAT
TGAAAAGTCAAACAAAAATATATCTTCTAGGCGAATTCAATCCAAATGAAAATGATAAAG
TAATTAAAGATCCAATTGGAAGTCCTATGTCATCATTTGAGAAATGTTATGAACAAATTT
CTATTTGTTGTGAAAGATTGTTAGAAAAAATATTGAACAAATCAATATAAAATTTATATG
ATTTAGTTTAAGAAGCGTTTTTATATTTATTTACATATCATTCAGTGTTAAATTAATATC
AAATTATGCGAAATAAAAGAAAACTTTAATCAAAAAGTTTATTAAAATCAGTATATTGTT
TTGTAAATTCTCTGTAAGCTATGCATACGCGTCTATTAGTAATGTCTTCTCTTAAAACTG
AATGTTCATATTGATAACGGGGAGCTCCATAAAGAACAAACAACGAACGTGCTGGCATTT
TTACTCTGATAACAATATTATCAGGAACTATATCTTCAAGTTCTCCAATTAATTCACTCT
TATATAGTTCTAGGCAGTCAAGATTATATTGCTGTGCATACGTTGGAAAGTGTTTTGTTA
ATGTTAATACAGTATCACCAATGCAATTAACTGTCACTATTCTTTCACCCAATCATCCAA
ATGAGGCTCAATATGAGAACCTCTACTTTCTTCATATTCTAAGAAACATTCTTCGACAAT
TTTAAAATCCTTGAGAAAATCAACTTTATTCAATTTTTCACGAATGAAATCTGAACTACT
AAAAAATCCTTGAAAAAATTCAGGACGAAGTTTTTTCTTTTTAAAATTGACCTTTGGTCC
AAAGTTTTTCTTTCTTCTACCACTCTGTGATAGATCCCACAAAGATTCATCAACATTATG
CACTATTTTAGAGCATTCTGAATTTGTCAAAAAATCTTGTTGAAGATAAAGACCGGAAAA
TTTTCTTCCGTTGCTACTTAACTCATGCTCATCACAATTTAAAA
>g1848.t39 Gene=g1848 Length=74
MFGMDYFHIEDMLNAADALKSQTKIYLLGEFNPNENDKVIKDPIGSPMSSFEKCYEQISI
CCERLLEKILNKSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g1848.t39 | Gene3D | G3DSA:3.40.50.2300 | - | 1 | 73 | 0.0e+00 |
| 1 | g1848.t39 | Pfam | PF01451 | Low molecular weight phosphotyrosine protein phosphatase | 3 | 66 | 1.7e-06 |
| 2 | g1848.t39 | SUPERFAMILY | SSF52788 | Phosphotyrosine protein phosphatases I | 2 | 69 | 0.0e+00 |
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.
