General information for g4555.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4555 is located on chr_2: 3231409..3232228 (+ 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_2 | g4555 | g4555.t5 | TSS | g4555.t5 | 3230854 | 3230854 |
| chr_2 | g4555 | g4555.t5 | isoform | g4555.t5 | 3231409 | 3232228 |
| chr_2 | g4555 | g4555.t5 | exon | g4555.t5.exon1 | 3231409 | 3231419 |
| chr_2 | g4555 | g4555.t5 | exon | g4555.t5.exon2 | 3231481 | 3232228 |
| chr_2 | g4555 | g4555.t5 | cds | g4555.t5.CDS1 | 3231743 | 3232228 |
| chr_2 | g4555 | g4555.t5 | TTS | g4555.t5 | 3232356 | 3232356 |
Sequences
>g4555.t5 Gene=g4555 Length=759
ACTCATTTAGTTTGTTCCTATAACAACACACCTAAGTATCATCAAGTAAAAGGCAAAGGA
AAGATAATTACAAAGAAATGGATAGAGCGCTGTTTCACTGAGCAGAAGCGATTGCCTTGG
CGTCGATTTGCAGTAGATAAAAGTGAACAGGACGAGTCAGAGAGCGAAGAAGAAATTTTT
AGTGAATGGCACAAACCAAAAACATCCTCAAATAATGATGATGATAAAGAAAGTATTAAT
TCAAATAGCTGTGACATCGATGATGATTATGACATGCTTATTGTTGATAAAAGAAATGAA
AAAAATCCAAGTCCCATGAAAAAAGTTATTGCTTCAATGACAATCGATGATAGTGAATCG
GATAATGATATGAAAACTGTAAAAATAGAAAAGAGTGAAATTGACAGTGAAAGCAAAGAT
AATAACAATGACTTCCAGGAAAACGTGGAGTGCTATTCAGAAGATTCAATCAGTTCAGTT
GATATTACAAAAATTGAATGTGAAGTATTCAAAGATAAAAAATTTTATTTGAATACAGAT
CTCAGTGCTACAGATAAAATTTTATTGAAAGATCATATTAAAAATATGTTGGGTGTTGTT
ACGAAAAACCCTCATAAGGCAGATTATATAATTGTCAAAAAAGCTAAGTCGTTGCCAATC
AAAGTATCAGCAGAAATCGTAAAAGAAGTTTGGATACGAGAGTGTTTCGAATTGCAGGCA
TTTATACCAACATCACGTTACAGAATTGCTAAATCATAA
>g4555.t5 Gene=g4555 Length=161
MLIVDKRNEKNPSPMKKVIASMTIDDSESDNDMKTVKIEKSEIDSESKDNNNDFQENVEC
YSEDSISSVDITKIECEVFKDKKFYLNTDLSATDKILLKDHIKNMLGVVTKNPHKADYII
VKKAKSLPIKVSAEIVKEVWIRECFELQAFIPTSRYRIAKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4555.t5 | Gene3D | G3DSA:3.40.50.10190 | - | 72 | 160 | 8.7E-11 |
| 5 | g4555.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 21 | 49 | - |
| 4 | g4555.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 27 | 49 | - |
| 1 | g4555.t5 | Pfam | PF16589 | BRCT domain, a BRCA1 C-terminus domain | 78 | 157 | 4.8E-9 |
| 7 | g4555.t5 | ProSiteProfiles | PS50172 | BRCT domain profile. | 74 | 158 | 12.867 |
| 3 | g4555.t5 | SMART | SM00292 | BRCT_7 | 76 | 148 | 2.1E-4 |
| 2 | g4555.t5 | SUPERFAMILY | SSF52113 | BRCT domain | 78 | 158 | 4.07E-10 |
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.
