General information for g2403.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2403 is located on chr_3: 17678811..17687452 (+ 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 | g2403 | g2403.t1 | isoform | g2403.t1 | 17675888 | 17679515 |
| chr_3 | g2403 | g2403.t1 | exon | g2403.t1.exon1 | 17675888 | 17675978 |
| chr_3 | g2403 | g2403.t1 | cds | g2403.t1.CDS1 | 17675888 | 17675978 |
| chr_3 | g2403 | g2403.t1 | exon | g2403.t1.exon2 | 17676042 | 17676204 |
| chr_3 | g2403 | g2403.t1 | cds | g2403.t1.CDS2 | 17676042 | 17676204 |
| chr_3 | g2403 | g2403.t1 | exon | g2403.t1.exon3 | 17676435 | 17677290 |
| chr_3 | g2403 | g2403.t1 | cds | g2403.t1.CDS3 | 17676435 | 17677290 |
| chr_3 | g2403 | g2403.t1 | exon | g2403.t1.exon4 | 17677416 | 17678630 |
| chr_3 | g2403 | g2403.t1 | cds | g2403.t1.CDS4 | 17677416 | 17678630 |
| chr_3 | g2403 | g2403.t1 | exon | g2403.t1.exon5 | 17678693 | 17678811 |
| chr_3 | g2403 | g2403.t1 | cds | g2403.t1.CDS5 | 17678693 | 17678811 |
| chr_3 | g2403 | g2403.t1 | exon | g2403.t1.exon6 | 17679329 | 17679515 |
| chr_3 | g2403 | g2403.t1 | cds | g2403.t1.CDS6 | 17679329 | 17679515 |
| chr_3 | g2403 | g2403.t1 | TSS | g2403.t1 | NA | NA |
| chr_3 | g2403 | g2403.t1 | TTS | g2403.t1 | NA | NA |
Sequences
>g2403.t1 Gene=g2403 Length=2631
ATGACGAGGGTTGGCACCGAGGGAAAACCACCACCAATTGCCGGACCACAAATGCTGAAT
AGCAAATCCGTCCCATCGTTGCATCATATCGGCAATGCTGGCAATAAATCGAAAAGCATA
CAAAACCTCACTGGTCAAAGCAGTAGCAGTGCTGGGAATATAAACACATCGACTTCGGCA
ACAGATCAAGGATTTTATCAAAATTTGAGCGTCTATCGTCAACAGAATCAAAGTCATCCC
AATCTTGGTGACAACCGTTCCATGAATCATCAACAAGTTATTGGAAATAACAGCAGCAGT
GGTGCACCACTCGCAACCAACATTATGAACCGTCCGGCATCAGCCTATTTCAACAATAGC
AATAGTAGCAATGTAATGAATCTTTCATCTCCTTCTACGCCCAACCTTCCTAATACTGCA
CAGCAGCAAAGCACTAGCACTGGTAACTTGATGCAAACAAATCCATCAAATATGATGGTT
TACACTAATAATAATATGATGCCTTCACCCGCACAACAAGCACATATTTCACATCCAAAT
TTAAGCGGAATGTCTAATGCATCATCTTCAATTACCAATTCACCCATTACCGCTCATCGA
CCGCCAATAATGCCCAATAAGCAACAGCAACAGGGCAATTTCAATAGAGATGCACAATCA
CAGCATAGTTTGAGAAGTCAGCAACAACAACAAATGATGGCACCATCAATGCCAAATATT
CCACATGCTAGTGGTTATGCAGCAACAATTCCTGCAAGTCAAAGCATGCAGAATGTCAAT
CAAGTCACTGGAAATTATCAAATGTATCAAATACAGCAACAACAAGAGCCACAGCTTTCT
CCTAATCAGCAAGCATCACTTTTAAGAGGAACAGCAAAAATGGCAGAAATGGGTGAAATG
TTAAAACGACAACAACGAAACCAACAGCAACAGATGGCAACAAATGGTCCTATTCACTAT
ACAAATTCAATGGACAACATTCACATTCCCCAGACAACAAATTCCGCAATTCCGCCGCAA
ATGCTTTCGCCACATTCACAGCAACAGCGACAAGCCTTTCATCCTCAGAGTCCACAAAAA
CAATTGCCCACTACTGCACCTAAACCACAGCGTCATGAGGAACATCAACCTCCAATATTA
CCCCCTACATCCACGCATCCGCTATTTAAAAGTGCAAGTGGTCAACAAACGTCGTCGACA
TCGCAATTGGTGAACTATAGCACATCAGATGCACCAAAAACTGCACTCTATCCCACACAG
CAGCAACAACAGCAAGGAATGAAAAATAGCAATAGCACGATTGCACCATCAAATCCATGG
GAGCGTGAAGAACGAGAAAAAGAACTCGAAATGAGACGTGAACAAGTACGTCAATGGCGT
GATCAGCAGATTGTTGAACTTTCATTATTGCCGCAAAGAACGCCACAGCAAGAAGAGCAA
TTAAAAACATTAGTTCTTGAACGTGATTTCGAGAGACGAGCACAAGAAGAAGAAAATGAA
GAGGAAAATGATATTCAATATCAGAAAAATAATAGTGCTGTACAGGAAGTTTTACGTCTA
CAACAGCCAACAATTGGTAATAATGTGACTAGTCAAATTTCAGTACCAACCACACGATTA
AAGCAGGTTGACATTAAAAATATTTCACCGACATCTTCAGATGCAACAACATCGCCATCG
AGTGAGAATATGATAAATCCTCCTTTTCCACAACAACCGCCACCTGTTCAACCCAAAAGT
ATTTTGAAGTCAACAAATAATTATAACAATAGTAATCCTTCATCACCGTCAAAACATGGA
AAAGTGACGAGTTTTGCTCCAAAAATTGACACAAAAACTCATAATCTTAGTGAAATCACA
ATGAACAATACGAATGCTAATCAGATGTTGTCACAGCTAAATAAAGACATGAATGAACTT
GCAATCGATTATCAGGCTGATGAACAAGGCAACATTCCACCACCACCTCCTGAACGTGGC
AGTTCTTTTGCTGTTATGCATCAACAAAAGCTTCGAAATAGCGGAACCTTCCAAAAACTA
CAGTTCAATGAGCACCCAATCATCAATAACACGACACATATGAACAATAACAACAACAAT
AAATATATACCATCAAATGAACCAATAAATTCACCTACAACGACCACAGGCACATTTACG
GCACATCAAATTCAACAGCAAATGAACCTAATTAATAACAATGTATCATTCGCACGTGAC
AACAAACGAGTCTCATTCCATGATCATGAAAACAACAATAATAACAGTGTAGATGTCATG
GTTGAACATGAACATGATTTGTCAACAATTCGTGAGGATCCAAATAGATTCATTGAAGAA
ACTACAGCAATGCTTCAAAGTCCACAGACACCAGAAGCTGATACTAACTGGGGAATTCAA
ATGCAATCGACGCCAGGTGTAATTGGCGCACAAGAAGTATATAGAGATCCACGTCAAAGA
AGACTGGCAGAGCAACAGCAGAAAAAAACAACAGAATCGACCCCTGTGCCGGAAAAATTG
TCATTCAAAGAAAAAATGAAGATGTTTGCACTTGAATCGGGTGAAAATAACACGCCTAAG
GACAAATTGAAAATCTCACGAGCCCAAAGAGACATTGATGCGGTTCACTAA
>g2403.t1 Gene=g2403 Length=876
MTRVGTEGKPPPIAGPQMLNSKSVPSLHHIGNAGNKSKSIQNLTGQSSSSAGNINTSTSA
TDQGFYQNLSVYRQQNQSHPNLGDNRSMNHQQVIGNNSSSGAPLATNIMNRPASAYFNNS
NSSNVMNLSSPSTPNLPNTAQQQSTSTGNLMQTNPSNMMVYTNNNMMPSPAQQAHISHPN
LSGMSNASSSITNSPITAHRPPIMPNKQQQQGNFNRDAQSQHSLRSQQQQQMMAPSMPNI
PHASGYAATIPASQSMQNVNQVTGNYQMYQIQQQQEPQLSPNQQASLLRGTAKMAEMGEM
LKRQQRNQQQQMATNGPIHYTNSMDNIHIPQTTNSAIPPQMLSPHSQQQRQAFHPQSPQK
QLPTTAPKPQRHEEHQPPILPPTSTHPLFKSASGQQTSSTSQLVNYSTSDAPKTALYPTQ
QQQQQGMKNSNSTIAPSNPWEREEREKELEMRREQVRQWRDQQIVELSLLPQRTPQQEEQ
LKTLVLERDFERRAQEEENEEENDIQYQKNNSAVQEVLRLQQPTIGNNVTSQISVPTTRL
KQVDIKNISPTSSDATTSPSSENMINPPFPQQPPPVQPKSILKSTNNYNNSNPSSPSKHG
KVTSFAPKIDTKTHNLSEITMNNTNANQMLSQLNKDMNELAIDYQADEQGNIPPPPPERG
SSFAVMHQQKLRNSGTFQKLQFNEHPIINNTTHMNNNNNNKYIPSNEPINSPTTTTGTFT
AHQIQQQMNLINNNVSFARDNKRVSFHDHENNNNNSVDVMVEHEHDLSTIREDPNRFIEE
TTAMLQSPQTPEADTNWGIQMQSTPGVIGAQEVYRDPRQRRLAEQQQKKTTESTPVPEKL
SFKEKMKMFALESGENNTPKDKLKISRAQRDIDAVH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2403.t1 | Coils | Coil | Coil | 442 | 462 | - |
| 10 | g2403.t1 | Coils | Coil | Coil | 491 | 511 | - |
| 12 | g2403.t1 | Coils | Coil | Coil | 616 | 643 | - |
| 7 | g2403.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 207 | 233 | - |
| 5 | g2403.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 342 | 375 | - |
| 6 | g2403.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 342 | 366 | - |
| 4 | g2403.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 418 | 443 | - |
| 9 | g2403.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 418 | 438 | - |
| 3 | g2403.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 818 | 876 | - |
| 8 | g2403.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 857 | 876 | - |
| 1 | g2403.t1 | PANTHER | PTHR10398 | AFADIN | 35 | 876 | 1.2E-61 |
| 2 | g2403.t1 | PANTHER | PTHR10398:SF1 | CANOE, ISOFORM E | 35 | 876 | 1.2E-61 |
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.
