General information for g13171.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13171 is located on chr_1: 28320230..28321582 (- 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_1 | g13171 | g13171.t3 | isoform | g13171.t3 | 28316591 | 28321400 |
| chr_1 | g13171 | g13171.t3 | exon | g13171.t3.exon1 | 28316591 | 28316767 |
| chr_1 | g13171 | g13171.t3 | exon | g13171.t3.exon2 | 28316831 | 28316880 |
| chr_1 | g13171 | g13171.t3 | exon | g13171.t3.exon3 | 28316961 | 28317303 |
| chr_1 | g13171 | g13171.t3 | exon | g13171.t3.exon4 | 28317369 | 28317744 |
| chr_1 | g13171 | g13171.t3 | cds | g13171.t3.CDS1 | 28317666 | 28317744 |
| chr_1 | g13171 | g13171.t3 | exon | g13171.t3.exon5 | 28320898 | 28321400 |
| chr_1 | g13171 | g13171.t3 | cds | g13171.t3.CDS2 | 28320898 | 28321400 |
| chr_1 | g13171 | g13171.t3 | TSS | g13171.t3 | 28321517 | 28321517 |
| chr_1 | g13171 | g13171.t3 | TTS | g13171.t3 | NA | NA |
Sequences
>g13171.t3 Gene=g13171 Length=1449
ATGTATCTTCCTAAAGTGTTTAGATTTAGGAGTTCACAACTCAGTGCTAATCAATATTTT
ATTGTATGTCTGATCGGAGGATTTTTATTAAGTTTTTATTGGCCTACATCAAGCTATCGT
GATGAAAATTGCGAACAGAAATTAAGAGAACTCGCTTCAATTAATGGCAATTCACAAAGT
CATTTACTTAATGAAGATTTCGAACCGCAGCTTAATTTAGCACAAAAACCTATGTCAGCA
AAAAAGTCAGTCAAATCGATCGTTCGTCCAAGATATTTCAGTTCAGAATTAAATGTAAAA
CAAGATCGATTATTTGTTGGTGTACTAACAGTACAAGAGAATATTGAAAGTTTGGCAACT
GCCTTCAATAAAACAACTGCACATCTAGTTAATAAGATTAAATTTTTCATTCATGCCGAT
AATATTAAGACAAATTTCAAGCTTAAAAATATTGTCGGATTTACAGATACAAGAGAGAAT
TATCGTGCATTTCATGTTTTAAAAGTGAATCATCGGTTAAAGGTAAGAAGAAGAAGAATT
AGAACCTCATACAGTGTATTAAAATTTCATGAGAAAAAATGACAAGTACGTGATGCACAA
ATATTCGAATAGCTTAGTCTGACTTGTCACCAGCAGCCTGCTTGTTCTGCAATTTGCTGT
ACTCTTCTGTCAATCGATCATATTCTCTGTTGAGTGAATCAGCTTGCGATTTTAATGCTT
CTTTATCCTTTCGTTCCTTTTTCAATTCAGCTTCCAATTCTTTAATCTTGTTTTGTAATT
TTTCCTTATCATCATCAGCTTTATTATCACTATTAGCAGTGTTAGCAGAACCACCATCAG
TTTTCTTTTCGGCCATTAAATGACGAGCAGCCTATAGTTGCGGACTGTGCTTGTTTCATG
CTTGCTTCAGAATTTGCAATTAACGATGCTTGTGTTGTGATTAAAATAATCAATCGTCTA
ATGACCAATGACAAGAAAATGGCAAACCCAGAGATGTAAAAGTTGCGTTGAGCACGGAAG
AGTCTCATTGAATGTTGCATTCCCAAATTAAGAGTAGTTTCCTCTTCACTGCTGCTGTAT
TTACGCATTTCTCTAATAGCCTCAAGCAAAAAGATTACCAAAACACCAAGCATCAAATAA
AAGTAAATCTGTGCTTGCCGAGAGAGAGCTGACAGAAATCTTGATTTGAAGAAACGATTC
CATTTGGATGCACTAAAGACTAGCAATACTAATAAAAGAACAACAGCAACTTCAGCATAC
AAAAATCCAGCTCACCGATTAAAGTCCAAGTAAGAGACATCCTTAATATAAGTTTATTAG
ATTAATCCTTATTAAAATGATTTAAAAAAACAATTTCTTTAGTTTTTAAATGATTCTCGT
TCAATTTGTATTTTATTAATGACGATTTTTGGAAAAATTTTACGAAATTTATATGAATGA
AAATAGCGA
>g13171.t3 Gene=g13171 Length=193
MYLPKVFRFRSSQLSANQYFIVCLIGGFLLSFYWPTSSYRDENCEQKLRELASINGNSQS
HLLNEDFEPQLNLAQKPMSAKKSVKSIVRPRYFSSELNVKQDRLFVGVLTVQENIESLAT
AFNKTTAHLVNKIKFFIHADNIKTNFKLKNIVGFTDTRENYRAFHVLKVNHRLKVRRRRI
RTSYSVLKFHEKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g13171.t3 | PANTHER | PTHR12369:SF13 | HEXOSYLTRANSFERASE | 13 | 168 | 8.3E-23 |
| 2 | g13171.t3 | PANTHER | PTHR12369 | CHONDROITIN SYNTHASE | 13 | 168 | 8.3E-23 |
| 4 | g13171.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 15 | - |
| 6 | g13171.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 16 | 34 | - |
| 5 | g13171.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 35 | 193 | - |
| 3 | g13171.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 15 | 34 | - |
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.
