General information for g13993.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13993 is located on chr_1: 33864706..33865618 (+ 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 | g13993 | g13993.t2 | isoform | g13993.t2 | 33862485 | 33863924 |
| chr_1 | g13993 | g13993.t2 | exon | g13993.t2.exon1 | 33862485 | 33862662 |
| chr_1 | g13993 | g13993.t2 | exon | g13993.t2.exon2 | 33862745 | 33863530 |
| chr_1 | g13993 | g13993.t2 | cds | g13993.t2.CDS1 | 33863188 | 33863530 |
| chr_1 | g13993 | g13993.t2 | exon | g13993.t2.exon3 | 33863621 | 33863924 |
| chr_1 | g13993 | g13993.t2 | cds | g13993.t2.CDS2 | 33863621 | 33863667 |
| chr_1 | g13993 | g13993.t2 | TSS | g13993.t2 | NA | NA |
| chr_1 | g13993 | g13993.t2 | TTS | g13993.t2 | NA | NA |
Sequences
>g13993.t2 Gene=g13993 Length=1268
ATCACTTGTTCTTCGTTTCTTCAGTTGTAACCCAACATCGACAAAGGCTTGTTCTGCAAT
AAGTTTCAACTTTTCCTTTTGTAGGTTGTATTTGTACTCTTTATTGCAGAAGTCTAGTAA
TCTATATACATCATAATAACTTGGAAATCCATTTTCTTTGTTAATTTTTTTTGTCAACTA
ATTTCACAAATCTTTTCATAAATTTCAACGGCTTTTTTCTCACACAAGACTTTTCGCATA
TATGCTGATTTATCATCATCCCAATCAACCTCTTCTTCTTCAAGTGCCTCAATTTTCTTT
CTCAATTGTGCAAGTCCTTTATTTAATTTTTTCAAATATTTATCCTTCTTTTCATCACCT
GTTGTTTTGATTTCTATACCATTTTCTGACTGTTGAGATGTTGAAGCTTCATTCTCTGTA
ACGACCGGCACAATTGAATTTGTTTTCTTACGTGATTTAAGTTCATTTATTATGTCTTGA
AGTTTTGAATATACACTTCTTGGATCTTTAAGTATAGCAAGCGCAGAATCTTCAAGCATT
TTTCTAAAGAATTTGGAAATTGCATATTCTGGATGAACCAAATGATAATGTTTCAGCAGT
TTTGATTTAATTATTTTTTTCATGTCATCATTTGGTTCAATTTGTTTGCAAGCTTTAATG
AAACCTTTAAGTTCTTTTGTTATTTCATTCTCTTGTTTTTCTTTTTGCTTTGATGGACCA
GCATTATTTTCTTCTTGTGTATCATTTGTATCTTGTGATGTTGTTAAATTTGTTGAATTC
TTTTTTTCATCATCATTGCTACTGGATCTTTCAATTGCTTTGCTTACTTCACCAATTTTT
TGCGGCTGTATTCTTCGAATTTTTTCAGGTGGACTTGTATCATTATTTCCATTTGTTGTT
GTATTTGGTCTTTTATTAGATGACACTGCTTGTATCTTATCAGTTGAATTTGTTTCTGTG
TTCTTTAACTCACCTGATTTGCATTATCTTCATCATCCGAATCAAGAATAATAATTGTTG
GATCCATTTTTAGCTTATTTAAATGATTATTTAATTTATAAAATATAAGAATAAGCTTTT
TTAGGGTTCTACGTTTATTGTTTACTCTTTAAAACAATTTTTCTACATCAGGGTTATGTA
AGCAATTCGAGAGAGAGAGAGAGAGATAAATTGAAGAAGTATGTGTGCTGAAGTTCTTTT
TCGATCTTCAATAACAACATTTTCATTCGATAATTTTTATGTTTATTAAGAGATATAAGC
TAAAAAGA
>g13993.t2 Gene=g13993 Length=129
MSSFGSICLQALMKPLSSFVISFSCFSFCFDGPALFSSCVSFVSCDVVKFVEFFFSSSLL
LDLSIALLTSPIFCGCILRIFSGGLVSLFPFVVVFGLLLDDTACILSVEFVSVFFNSPDL
HYLHHPNQE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13993.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 45 | - |
| 8 | g13993.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 15 | - |
| 9 | g13993.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 16 | 27 | - |
| 12 | g13993.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 28 | 45 | - |
| 6 | g13993.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 46 | 60 | - |
| 11 | g13993.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 61 | 81 | - |
| 4 | g13993.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 82 | 87 | - |
| 10 | g13993.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 88 | 115 | - |
| 5 | g13993.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 116 | 129 | - |
| 3 | g13993.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 15 | 37 | - |
| 2 | g13993.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 50 | 72 | - |
| 1 | g13993.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 99 | - |
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.
