General information for g16249.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16249 is located on chr_4: 8851865..8854370 (+ 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_4 | g16249 | g16249.t1 | isoform | g16249.t1 | 8851865 | 8854370 |
| chr_4 | g16249 | g16249.t1 | exon | g16249.t1.exon1 | 8851865 | 8851878 |
| chr_4 | g16249 | g16249.t1 | cds | g16249.t1.CDS1 | 8851865 | 8851878 |
| chr_4 | g16249 | g16249.t1 | exon | g16249.t1.exon2 | 8852079 | 8853170 |
| chr_4 | g16249 | g16249.t1 | cds | g16249.t1.CDS2 | 8852079 | 8853170 |
| chr_4 | g16249 | g16249.t1 | exon | g16249.t1.exon3 | 8854064 | 8854370 |
| chr_4 | g16249 | g16249.t1 | cds | g16249.t1.CDS3 | 8854064 | 8854370 |
| chr_4 | g16249 | g16249.t1 | TTS | g16249.t1 | 8854409 | 8854409 |
| chr_4 | g16249 | g16249.t1 | TSS | g16249.t1 | NA | NA |
Sequences
>g16249.t1 Gene=g16249 Length=1413
ATGAAGACATTGTGGTTTGAATTCTTTTTCATTCCTTTCGTTTCTGCTGTTGAAATCAAT
TGTGAATTCAGAAACATTAGTTGGGGTGGAGTTGGTTTATTTTACGACTGTAATTTACAG
AATGACCCACGAATAACTTCACTTTATACTGCAGTCACAGTTGTAAATGGAAACCATCAA
TTACCTATGAATAATGAAAAAGTCCAAGGATTCACTTCACAATCGTCTTCTCAAATTATT
AATTACATACCACATGGACTTGATAAATTTTTTCCAAACCTCATTTCGATTGATATCAAT
GATGGTCGCATAAAAGAAATTCATCAAAAAGATCTTGAACAATATCCAAAGTTAAAAATA
CTTGATTTGTTTGAAAATGACATTGAATATCTTGAAAAAGATCTTTTTAAGTTCAATACA
GAGTTGCAAATTGTTTGGATATATAATAACAAAATAACTCAGATTTACCCAACAATTTTC
GATCATTTAAATAATCTTAAACGACTTTGGTTGACAAATAATAAATGTATAAACAAAAAT
AAAGAAGACAGATCAGGTGTACTTGAATTGATAAAGGAAGTCAAAGAAAATTGTTCATCT
ATATTTTCTGTATTGGATCAACTCAATAACCTTAATGAAACAAATTTAAAAAATTTTCAA
ATAATCAAAAATCAGATAACCGAAAGTTTGTCAAAAATTTTAAATTTGAAATCAGATGTT
AAAGATATAAAAAATGATTTGATCGATAAACTTAAAAAATCTGAGACAAGCATAAATCAA
AAATTTGAAATAACTGCAAAAAACATGACTGATATTATACAAATTTTAATGAAACAACAG
GAAAAAATTTCGATGATAAAATTTGGTGAACAAAATGAGGAAGTGAATCAAAATTTGAAT
AATCTTAAAAATGAAACAAGTCAACAATTTTTGAGTCTTAAAGCAGAAACGATTCATCAA
TTTTTCTTCATTGCATTGCCATTGATTTGTCTTTTCACTTCTCTTAACATCGCTATGATT
TATTTGTGCTGCCGCAAGTATAACAAAGCTGGAAAACCTCAAAAATCGTCATCATCTAAT
GACGCTGAATTAGAAGAGAGAAATTTATGTCCATTCAGTAAGAAAATAGCTCCAGTCTGG
ATTGATGTTGCTTCATCTTTAAAAACTTCACATGAAGTAAAAATTGCTGAACTTGAATGT
ATTAAAAATAAAAAAATCTGTGATGAATTCAATGTCAACAGTTTCCCAACATTCAAAATA
TTCAAAAATGGAAAAGAAATTTCAACTTTCGATACTGAAAAATTTAATGCAAATACTGAA
AATTTTGTGAAATTTGCAAAAAGTTTTATTGATAAAAAAGTTGAAAATTTACAAATTAAT
AGTAAGAAAAGTTTTGCAAAATGTTTAGGTTAA
>g16249.t1 Gene=g16249 Length=470
MKTLWFEFFFIPFVSAVEINCEFRNISWGGVGLFYDCNLQNDPRITSLYTAVTVVNGNHQ
LPMNNEKVQGFTSQSSSQIINYIPHGLDKFFPNLISIDINDGRIKEIHQKDLEQYPKLKI
LDLFENDIEYLEKDLFKFNTELQIVWIYNNKITQIYPTIFDHLNNLKRLWLTNNKCINKN
KEDRSGVLELIKEVKENCSSIFSVLDQLNNLNETNLKNFQIIKNQITESLSKILNLKSDV
KDIKNDLIDKLKKSETSINQKFEITAKNMTDIIQILMKQQEKISMIKFGEQNEEVNQNLN
NLKNETSQQFLSLKAETIHQFFFIALPLICLFTSLNIAMIYLCCRKYNKAGKPQKSSSSN
DAELEERNLCPFSKKIAPVWIDVASSLKTSHEVKIAELECIKNKKICDEFNVNSFPTFKI
FKNGKEISTFDTEKFNANTENFVKFAKSFIDKKVENLQINSKKSFAKCLG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g16249.t1 | CDD | cd02961 | PDI_a_family | 370 | 446 | 4.03994E-17 |
| 10 | g16249.t1 | Coils | Coil | Coil | 285 | 316 | - |
| 8 | g16249.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 66 | 200 | 2.7E-17 |
| 9 | g16249.t1 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 368 | 468 | 9.2E-18 |
| 3 | g16249.t1 | PANTHER | PTHR45672:SF3 | THIOREDOXIN DOMAIN-CONTAINING PROTEIN 5 | 370 | 450 | 8.5E-16 |
| 4 | g16249.t1 | PANTHER | PTHR45672 | PROTEIN DISULFIDE-ISOMERASE C17H9.14C-RELATED | 370 | 450 | 8.5E-16 |
| 1 | g16249.t1 | Pfam | PF13855 | Leucine rich repeat | 116 | 175 | 3.2E-8 |
| 2 | g16249.t1 | Pfam | PF00085 | Thioredoxin | 369 | 438 | 2.7E-12 |
| 13 | g16249.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 14 | g16249.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 15 | g16249.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 17 | g16249.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 16 | - |
| 12 | g16249.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 320 | - |
| 16 | g16249.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 321 | 344 | - |
| 11 | g16249.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 345 | 470 | - |
| 6 | g16249.t1 | SUPERFAMILY | SSF52058 | L domain-like | 79 | 178 | 1.09E-16 |
| 5 | g16249.t1 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 370 | 450 | 2.69E-14 |
| 7 | g16249.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
| 19 | g16249.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 320 | 342 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
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