General information for g3749.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3749 is located on chr_3: 27807849..27809943 (- 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 | g3749 | g3749.t4 | isoform | g3749.t4 | 27806353 | 27807849 |
| chr_3 | g3749 | g3749.t4 | exon | g3749.t4.exon1 | 27806353 | 27807849 |
| chr_3 | g3749 | g3749.t4 | cds | g3749.t4.CDS1 | 27807301 | 27807615 |
| chr_3 | g3749 | g3749.t4 | TSS | g3749.t4 | NA | NA |
| chr_3 | g3749 | g3749.t4 | TTS | g3749.t4 | NA | NA |
Sequences
>g3749.t4 Gene=g3749 Length=1497
ATTTTCAAACGATAGCCTCTCGTTTCTATCGGTTTTATTATTTTATATTAATAACAAAAA
ATGAATAATAAAAAAAAGATTTCACTCATATTTTTGGAAGTGAAATGACCAGATTTATGT
ACAAAAGTGTATAAAAATGTTTTTCCTATCTGCTAAACGGTAACAAATAAATAAAAAATG
AATGAATGAATGAATTAGCCCTTGCGAATTGTCTGTGTGTGTCTCTCTCGTTAGATGTTG
ATTTTTTTCGGTCAATTTGTTTATTTTTGTTTTAATGTGGAACGCCATATGATGAACTTG
GTCTTGATACGAATGATGGTGCTCCATATGAACTGCTTGGAGCTGAAATTGATGGTGCGC
CATAAGAAAGGCTTGGGGCTAAGAATGATGGAGCAGAGAATGAAGGAGCGCCATATGAGC
TTGATGGACGAGATGCGAATGATGGAGCATAACCATGACCAGCTGATGCTTCATGTTTTA
AATATTGAGCGACTTGATGTCCTTGTTGAACATGACCAAAATCAATTCCAACAACACGGC
CTGAACTGAAGGCAGCTGGTGGGCCATATGAAGTTGATGGTGGTCCGTATGATGAACTAA
TTCCTCCGTGTGAACTGTGGCCACCAAATCCACCACCATGACCTCCCAAATTTTCTTGTT
GAATCAAAATTTCTTTAATTGTATGCAAAAGTTGTTGATCAAGATGAGCACCTTCTGATG
TTTGATGACCTACTGCTACTTGTTGATACCCGCTACTTCCACCTCCGAAACCGCTGGAAT
ATCCGCCACCTGAATAGCTACTTGAATGTCCACCACCGAATGAACTGAATGATGAACCAT
GACTGCTACCACCAAATGATGGACGAGCTTTGCTGTATGAATATCCACCAGGAGCTTCAG
CAAAACAAGAAACAGCACAAGCAGTTAATAATATCTGTGAAAAAATATATTAATTATTAT
GTAATAAAAGCACATAATGTAGCTCAATAATAATATAGCAAAAAAGAGTACAAGAAAGAA
ACAAAAAGTAAAAAAGAAAGTAAAAGTACTCGCAAAGTGACGTTGATGAAAAATGAAATA
AAAAATATTTGAGTTTCTTAGCCGACTAACCGAAATTCATTGCTTTTTAAATACATTACT
TACGCAATAAGGCATGAAAGAAAAGAAACAATAAAAATTTTGCACTTCATAAATCATGAA
GGTGTGTATTCATATTCATCAACATCATGTTAATGCTAATTAATTCAATTCATTAATTCA
CACTAATTTGAACATTTTAAGGCAATGAATTTCAATTTGCAAAATAAAAGTAATTGTTTG
AACAGAAATATTTTGATATTGACTTGAACAAATCGGCTTAAATCACAAAAGAAATCCAAT
TAAAATATGGTGGGTTTTTGTTGTTGCTGCTTTCTTTCATATTTAATCTTAAGTCACTCT
GCACTGTTCATTAATAATAATTTTCTTTCTTTCACTTTTATGCATTTTTTTATTACA
>g3749.t4 Gene=g3749 Length=104
MLIFFGQFVYFCFNVERHMMNLVLIRMMVLHMNCLELKLMVRHKKGLGLRMMEQRMKERH
MSLMDEMRMMEHNHDQLMLHVLNIERLDVLVEHDQNQFQQHGLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3749.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 3 | g3749.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 41 | - |
| 1 | g3749.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 42 | 104 | - |
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. There were no conditions that were differentially expressed