General information for g1928.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1928 is located on chr_3: 13948055..13950577 (- 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 | g1928 | g1928.t5 | isoform | g1928.t5 | 13946859 | 13947968 |
| chr_3 | g1928 | g1928.t5 | exon | g1928.t5.exon1 | 13946859 | 13947968 |
| chr_3 | g1928 | g1928.t5 | cds | g1928.t5.CDS1 | 13946860 | 13947708 |
| chr_3 | g1928 | g1928.t5 | TSS | g1928.t5 | NA | NA |
| chr_3 | g1928 | g1928.t5 | TTS | g1928.t5 | NA | NA |
Sequences
>g1928.t5 Gene=g1928 Length=1110
ATACCGATATAAAAATCCCACTCCCACGTCGCAACTCAGTTGATGTATCAAAAGATATTT
CTGAAACTGAAAGAACTGGAACCAAATATGAGAACCAAGAGTCAGATTATTCACAACGTC
GTCACACTGATAATGATTTAGAGAAACGTGATTTAACACAAAACAAATTAGAATTTACTA
CACAAAAGTTGAGACAAGAGTTTCCAGATGAGCAAGATCAACTTTATGATGAAATAAAAG
AAAAATTTAACCTTCGTCAAATGGATGAAAGTCAACAATTTTGTCCGATTAATGAAGATC
CAAAGGACGATAGTGATAACAAAAGTTCACCCGAAAATGATCTCGGCAAAATTGATGCAT
CAAAAGAAAAGTCTGATGATAACAAGAGTCTAGTCAAAGATGATAAAGATAAATCAGCTA
CATCACAACAATCGAAAAAGAAGCGTCGTAAGAAGTCGATGATTAAAAAGAAAAATTCTC
AGAGAAAGGGAAGTACAAGTAGCTCAGCTGGTAGCATTAATTCTGATCAAATTGATGTTG
AAGGAACTGATAACAATTCTGTTTGTACACTCTCTAATGACACATCTCCTAATACTGAAA
ATGATATTACAAAAGAGTTGCCACGTGATGAAGAACCAGCACCAACTGGTAAACAAATTG
ATCAAAATGATTCCTTTCCAATTAAAATTGAAGCACATCGTGAGCATTTATCAGACATTC
ATTTCTTTAGTGATGGTGAATTGGGTTCAGCTTTGAGTCCACAACAATCACGACCAGCAT
CTCCTATTCAAAGTGATACTGAATTTGAGGTTTCCCAGCGTGAAAAGAGTGAAAATGTTA
TGACTAGTTCAGCTAGTTGGAAATGGGGGGAACCGATCGTAAAAACTGATGATGTATCAA
ATGATATTAAAAATGTCGATTCAAGCAAAAGAAATTCAATGCTGACTGGAATGTTGAGTT
TTATGAAGCATAAAAGAAAGAATAATCAACAAGATGGACTCTATTTATCAGAATTAGATG
CAGAAGGAATGGATCCAGAAATTGCTGCTCTCTATTTTCCACCGAATAGCAAACAACATG
ACGAAAATCAAAGAACACGTGACGACGATC
>g1928.t5 Gene=g1928 Length=283
MDESQQFCPINEDPKDDSDNKSSPENDLGKIDASKEKSDDNKSLVKDDKDKSATSQQSKK
KRRKKSMIKKKNSQRKGSTSSSAGSINSDQIDVEGTDNNSVCTLSNDTSPNTENDITKEL
PRDEEPAPTGKQIDQNDSFPIKIEAHREHLSDIHFFSDGELGSALSPQQSRPASPIQSDT
EFEVSQREKSENVMTSSASWKWGEPIVKTDDVSNDIKNVDSSKRNSMLTGMLSFMKHKRK
NNQQDGLYLSELDAEGMDPEIAALYFPPNSKQHDENQRTRDDD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 138 | - |
| 6 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 9 | 55 | - |
| 5 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 56 | 72 | - |
| 7 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 73 | 115 | - |
| 1 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 116 | 130 | - |
| 3 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 160 | 198 | - |
| 8 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 162 | 181 | - |
| 4 | g1928.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 264 | 283 | - |
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.
