General information for g10406.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein dimmed.
Parent gene
- The parent gene g10406 is located on chr_1: 9585719..9587928 (+ 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 | g10406 | g10406.t1 | isoform | g10406.t1 | 9585719 | 9587928 |
| chr_1 | g10406 | g10406.t1 | exon | g10406.t1.exon1 | 9585719 | 9585922 |
| chr_1 | g10406 | g10406.t1 | cds | g10406.t1.CDS1 | 9585719 | 9585922 |
| chr_1 | g10406 | g10406.t1 | exon | g10406.t1.exon2 | 9586083 | 9586307 |
| chr_1 | g10406 | g10406.t1 | cds | g10406.t1.CDS2 | 9586083 | 9586307 |
| chr_1 | g10406 | g10406.t1 | exon | g10406.t1.exon3 | 9587536 | 9587928 |
| chr_1 | g10406 | g10406.t1 | cds | g10406.t1.CDS3 | 9587536 | 9587928 |
| chr_1 | g10406 | g10406.t1 | TSS | g10406.t1 | NA | NA |
| chr_1 | g10406 | g10406.t1 | TTS | g10406.t1 | NA | NA |
Sequences
>g10406.t1 Gene=g10406 Length=822
ATGAAGGCAAGTTCAAAAGAGGATAAAAACGAAATTCAAAATTCGAATGAATTTGGCGAA
TCGTCGGAAGACACGAGTGGATTTTTTGAATCATCAAGCACTTTAAATAATGAAATTTCA
TACAAAAGTAGCACACCTGAGCAATGTGTAGCAGTAGCAAATGCAAATGGTAGACTGAGA
TCAAGAAAGATGCAAGAACAAGAACAACCTTCACAAACAAACATCGATCCCTCTGATATG
ACAGATTCAAGTTCACAAAGTGACGATTATGGAAATTGTCGTGGACGTCGAAAAGCAACT
TATTTGACATCAACATCAAGTGTTCGAAGGAAAAAAGGAGCCTTAAATGCTAAAGAGAGA
AACCTTCGTCGATTAGAGTCTAATGAACGTGAACGAATGAGAATGCATTCCTTAAATGAT
GCATTTCAGTCACTGAGAGAAGTCATACCACATGTGAAGAAGGAGCGTAGATTATCAAAG
ATAGAAACTTTAACATTGGCAAAAAATTATATAAACGCATTGACTGAAGTGGTGGTAGCA
AACAGTAATGGTGGGTTTCATTCTTCACAGCAACCAAACAACTGCAATAATGAAATATCT
AATTTGATTTCGATAAACAATGCAGTAATTATAAATCCTAATCAAAATCAAGATGTCAAT
AATAACAATAATAATAGTAATAGAAACAGTCATGAACAGAGAGCAAGAGCAACAGGTCGA
AACAATTCAAATGTAAATGATCGTGACACAGATTTAGTTAATATAGAGTCTACTTTCTTC
GAAAATGAAGACGATGATGAAGATCCTTTTGGTATCCTTTAA
>g10406.t1 Gene=g10406 Length=273
MKASSKEDKNEIQNSNEFGESSEDTSGFFESSSTLNNEISYKSSTPEQCVAVANANGRLR
SRKMQEQEQPSQTNIDPSDMTDSSSQSDDYGNCRGRRKATYLTSTSSVRRKKGALNAKER
NLRRLESNERERMRMHSLNDAFQSLREVIPHVKKERRLSKIETLTLAKNYINALTEVVVA
NSNGGFHSSQQPNNCNNEISNLISINNAVIINPNQNQDVNNNNNNSNRNSHEQRARATGR
NNSNVNDRDTDLVNIESTFFENEDDDEDPFGIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10406.t1 | Coils | Coil | Coil | 108 | 128 | - |
| 5 | g10406.t1 | Gene3D | G3DSA:4.10.280.10 | HLH | 122 | 179 | 3.3E-21 |
| 12 | g10406.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 32 | - |
| 9 | g10406.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 15 | 32 | - |
| 10 | g10406.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 52 | 111 | - |
| 11 | g10406.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 66 | 90 | - |
| 8 | g10406.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 218 | 250 | - |
| 2 | g10406.t1 | PANTHER | PTHR19290 | BASIC HELIX-LOOP-HELIX PROTEIN NEUROGENIN-RELATED | 3 | 233 | 1.0E-36 |
| 3 | g10406.t1 | PANTHER | PTHR19290:SF97 | CLASS A BASIC HELIX-LOOP-HELIX PROTEIN 15 | 3 | 233 | 1.0E-36 |
| 1 | g10406.t1 | Pfam | PF00010 | Helix-loop-helix DNA-binding domain | 123 | 174 | 3.3E-15 |
| 13 | g10406.t1 | ProSiteProfiles | PS50888 | Myc-type, basic helix-loop-helix (bHLH) domain profile. | 122 | 174 | 15.815 |
| 7 | g10406.t1 | SMART | SM00353 | finulus | 128 | 180 | 7.4E-16 |
| 4 | g10406.t1 | SUPERFAMILY | SSF47459 | HLH, helix-loop-helix DNA-binding domain | 121 | 179 | 3.79E-16 |
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:0046983 | protein dimerization activity | MF |
KEGG
Orthology
- This transcript has been annotated with K08040 (class B basic helix-loop-helix protein 8)
Pathway
- This transcript belongs to the following pathways
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