General information for g1925.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1925 is located on chr_3: 13911940..13915910 (+ 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 | g1925 | g1925.t1 | isoform | g1925.t1 | 13911940 | 13915910 |
| chr_3 | g1925 | g1925.t1 | exon | g1925.t1.exon1 | 13911940 | 13913306 |
| chr_3 | g1925 | g1925.t1 | cds | g1925.t1.CDS1 | 13911940 | 13913306 |
| chr_3 | g1925 | g1925.t1 | exon | g1925.t1.exon2 | 13913359 | 13913728 |
| chr_3 | g1925 | g1925.t1 | cds | g1925.t1.CDS2 | 13913359 | 13913728 |
| chr_3 | g1925 | g1925.t1 | exon | g1925.t1.exon3 | 13915860 | 13915910 |
| chr_3 | g1925 | g1925.t1 | cds | g1925.t1.CDS3 | 13915860 | 13915910 |
| chr_3 | g1925 | g1925.t1 | TSS | g1925.t1 | NA | NA |
| chr_3 | g1925 | g1925.t1 | TTS | g1925.t1 | NA | NA |
Sequences
>g1925.t1 Gene=g1925 Length=1788
ATGGAAATTTCCACAATCATTTTCCTGATTTTGATTCATTCAATTCAATCAAAAGTGTTG
AACTACAACGAGACAAACGAAACTATTGATAGTATTGCAACCACAACCGCAAATGGAATT
TTCACAGTATGCGAACATCGTGATCTTCCAATCAACATCATTTTACCATCAACCTTTTCG
AAAAATGTCGAACTTCAACGTGTTTTTCGTTCAATCATTGACCGCATTACAGTGAAACAA
GTTTGCAATTATCGTGTAAAATCAATCAAGGAACTGAAAGAAGGGAAAATGAGGTTTAGT
TTATTTATAATTGATGCAAAGGATATAAAAGAAATTACTAAGAAAATTGTATCAAAATAT
TTCAATTTTCGACTTTATTTCATCATTGTGTTACTAAATGGAACTGAAAAAGATATTCAG
ATAATATTTGATGATATGTGGAAGAAATTTATTTTCAATATCAACATTGTGCATTGCTGC
AGAGACAATGAAGCATTGATAACGACATTCATGCCATTTCATAGTGAACGTTGCTCAGAC
ACTGCACCTGTGGAACTGAATAAATCAAGTGATTTTTTTCCTGACAAAATGAAAGATTTG
CACAATTGTCCTATCATTGTTGCAACGAGTCTTGATGCTGATCCTTGTGTCTATGCTATG
GAAACTGCAAATGGAAGTAGTGTGCCAGCTGGTAGTGATGTTCATGTGATAGAAACACTT
TCGAATGTTTTGAATTTTTCAATTAATTACATTTTCACCCAAACTCAAGGTTATCTCGAT
GTCAATGGTAGTGCAGAAGGTCCATTTAAATTACTGGTTGAAAGAAAAGCACATCTTGCT
TTCGATTGTTATTGGCTAACAAACACTCGTATTGAAATCCTCGATAGCACTTCAGCTTAT
TATAATGATTACGCGATTTTTGTGGTACCACCGGGCAAAGATTTGACAGCTTTTGAAAAG
CTTTTGTATCCATTTAGCTGGAATGTTTGGATTGTTCTTTGTGCTTGTATTTTCATTGGA
TTAATTTTGATATACATTGTGAAATTTCATGCGAAGAAGAAAGCAAAAATTGTTGTTTTT
GGTGAAAAAAATCAAAGTCCAGCAATGAATTTATTGTCGATTTTACTTGTTGGAAATCAA
CACATATTTCCACGTAATTTGTTTGCTCGACTTTTACTTCTTAACTTTTTGATTTTTACA
CTCAACATGAGAACTTTATATCAAGGAGCAATGTTTGAATTCATGCAGTCAAATAAAAAG
CATGATGAAATAAAATCAATTGATGAGATGAAAGAAAACAATTTTCCAGTTTATGTGCTG
AAAACAACTTCTGAATTATTCATTCATAATGAAAATATTAACAAAAGCTTAGTTCCCATT
ACAAGTCAATATCGAGAACAAATCATGAATGAAATTGAAGATTCTTATTTCAAAGGCGCA
CTTATCATGGCAAAATATAAAATTTTAACGAGAAACTTTCTCAACAAGGGAAAACATCAG
TTGACAATTTGTAAAGATCGTTTAATGTCAATTTCTATTGTTATGTATTCACCTCGAAAC
TTTTATTTAATTGACAAAATTAATGAAAAGATTTCGCTATTTAGTTCTGCAGGATTGTTG
CAATATTGGCATATATATGATAGAAAAGTTGAAACACCTGATGATGATTTAGAACCCACA
GTGTTAACAATGCAACAACTTCATGGGCTTTTTCAACTCACTTTGTTTGGCTATTTTCAT
AACCAAGATGAAATGGAAAAAATTTCATATAAGATGATAAGAGGATGA
>g1925.t1 Gene=g1925 Length=595
MEISTIIFLILIHSIQSKVLNYNETNETIDSIATTTANGIFTVCEHRDLPINIILPSTFS
KNVELQRVFRSIIDRITVKQVCNYRVKSIKELKEGKMRFSLFIIDAKDIKEITKKIVSKY
FNFRLYFIIVLLNGTEKDIQIIFDDMWKKFIFNINIVHCCRDNEALITTFMPFHSERCSD
TAPVELNKSSDFFPDKMKDLHNCPIIVATSLDADPCVYAMETANGSSVPAGSDVHVIETL
SNVLNFSINYIFTQTQGYLDVNGSAEGPFKLLVERKAHLAFDCYWLTNTRIEILDSTSAY
YNDYAIFVVPPGKDLTAFEKLLYPFSWNVWIVLCACIFIGLILIYIVKFHAKKKAKIVVF
GEKNQSPAMNLLSILLVGNQHIFPRNLFARLLLLNFLIFTLNMRTLYQGAMFEFMQSNKK
HDEIKSIDEMKENNFPVYVLKTTSELFIHNENINKSLVPITSQYREQIMNEIEDSYFKGA
LIMAKYKILTRNFLNKGKHQLTICKDRLMSISIVMYSPRNFYLIDKINEKISLFSSAGLL
QYWHIYDRKVETPDDDLEPTVLTMQQLHGLFQLTLFGYFHNQDEMEKISYKMIRG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1925.t1 | Gene3D | G3DSA:3.40.190.10 | - | 234 | 560 | 2.9E-29 |
| 8 | g1925.t1 | Gene3D | G3DSA:3.40.190.10 | - | 304 | 513 | 2.9E-29 |
| 7 | g1925.t1 | Gene3D | G3DSA:1.10.287.70 | - | 313 | 578 | 2.9E-29 |
| 1 | g1925.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 120 | 578 | 2.2E-58 |
| 2 | g1925.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 120 | 578 | 2.2E-58 |
| 13 | g1925.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 14 | g1925.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 15 | g1925.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 18 | g1925.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 12 | g1925.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 326 | - |
| 16 | g1925.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 327 | 347 | - |
| 10 | g1925.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 348 | 386 | - |
| 17 | g1925.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 387 | 407 | - |
| 11 | g1925.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 408 | 595 | - |
| 5 | g1925.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 201 | 544 | 2.72E-15 |
| 6 | g1925.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 3 | g1925.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 325 | 347 | - |
| 4 | g1925.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 387 | 406 | - |
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