General information for g993.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g993 is located on chr_3: 7306154..7306826 (+ 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 | g993 | g993.t5 | TSS | g993.t5 | 7303684 | 7303684 |
| chr_3 | g993 | g993.t5 | isoform | g993.t5 | 7303766 | 7304714 |
| chr_3 | g993 | g993.t5 | exon | g993.t5.exon1 | 7303766 | 7303804 |
| chr_3 | g993 | g993.t5 | cds | g993.t5.CDS1 | 7303766 | 7303804 |
| chr_3 | g993 | g993.t5 | exon | g993.t5.exon2 | 7303948 | 7304050 |
| chr_3 | g993 | g993.t5 | cds | g993.t5.CDS2 | 7303948 | 7304050 |
| chr_3 | g993 | g993.t5 | exon | g993.t5.exon3 | 7304155 | 7304714 |
| chr_3 | g993 | g993.t5 | cds | g993.t5.CDS3 | 7304155 | 7304714 |
| chr_3 | g993 | g993.t5 | TTS | g993.t5 | NA | NA |
Sequences
>g993.t5 Gene=g993 Length=702
ATGGCAGATTCTTTTTTCGGCTTTGACACAACATTACCGCGAGACGATGATTTGGGAAAT
TTGGGAAGAGAATTATCGGAAGATGAATATGATGCGCTTAACGATGAAACATTTAATCAT
GCTGTAAAGGATGATTGGGAAGATGGACATGAAACATTGGTGCGAATTAATCAATCAGCA
ACAATTGCTGGAAAATTGGAAGAATCGGATGATTATGACTCGGATTTGGATATCAATTTT
ATAACAAAATTGGATGATTTTGAAATCACTAATGATGATACTGACATAAGAAATCAATTT
CAACTAGATCCGAGTGTATGGACAACTCCAATTAAGCCAGTGACGCCAACTAAAGTTGCA
AACGTTTTTGGCAATAGTAAACTGCATGATGCTGAAGCTGCGAGGAAATTTCAAACAATT
CAACCACCGCCAGGTCTCGCATCACCATCATTAGCTCAGCAGACAAATGCATTGCAGCAA
CTTTTAGGCACAACAGCAGTTTCAAATACTGGTCCAAAGATTTTGTCAGTTGAGGAAATT
GAGAGGAATATCATCAATCAGCAACAGCAAAAAATGATTCAAGAAAAACTTGCTGCAATT
CAATCGAAAGTTCCTGCACAACAACAACAACAACAACAGTCAGTTCCTCCACCAGTTACG
ACAGCAAATCCTCAACAACCACAACAGCAACAACAGATGAGA
>g993.t5 Gene=g993 Length=234
MADSFFGFDTTLPRDDDLGNLGRELSEDEYDALNDETFNHAVKDDWEDGHETLVRINQSA
TIAGKLEESDDYDSDLDINFITKLDDFEITNDDTDIRNQFQLDPSVWTTPIKPVTPTKVA
NVFGNSKLHDAEAARKFQTIQPPPGLASPSLAQQTNALQQLLGTTAVSNTGPKILSVEEI
ERNIINQQQQKMIQEKLAAIQSKVPAQQQQQQQSVPPPVTTANPQQPQQQQQMR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g993.t5 | Coils | Coil | Coil | 177 | 197 | - |
| 2 | g993.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 200 | 234 | - |
| 1 | g993.t5 | Pfam | PF09770 | Topoisomerase II-associated protein PAT1 | 15 | 232 | 4.3E-7 |
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.
