General information for g8176.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Motor neuron and pancreas homeobox protein 1.
Parent gene
- The parent gene g8176 is located on chr_2: 28920092..28925987 (- 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_2 | g8176 | g8176.t1 | TTS | g8176.t1 | 28919988 | 28919988 |
| chr_2 | g8176 | g8176.t1 | isoform | g8176.t1 | 28920092 | 28925987 |
| chr_2 | g8176 | g8176.t1 | exon | g8176.t1.exon1 | 28920092 | 28920476 |
| chr_2 | g8176 | g8176.t1 | cds | g8176.t1.CDS1 | 28920092 | 28920476 |
| chr_2 | g8176 | g8176.t1 | exon | g8176.t1.exon2 | 28920541 | 28920563 |
| chr_2 | g8176 | g8176.t1 | cds | g8176.t1.CDS2 | 28920541 | 28920563 |
| chr_2 | g8176 | g8176.t1 | exon | g8176.t1.exon3 | 28920974 | 28921078 |
| chr_2 | g8176 | g8176.t1 | cds | g8176.t1.CDS3 | 28920974 | 28921078 |
| chr_2 | g8176 | g8176.t1 | exon | g8176.t1.exon4 | 28921149 | 28921198 |
| chr_2 | g8176 | g8176.t1 | cds | g8176.t1.CDS4 | 28921149 | 28921198 |
| chr_2 | g8176 | g8176.t1 | exon | g8176.t1.exon5 | 28925164 | 28925248 |
| chr_2 | g8176 | g8176.t1 | cds | g8176.t1.CDS5 | 28925164 | 28925248 |
| chr_2 | g8176 | g8176.t1 | exon | g8176.t1.exon6 | 28925328 | 28925565 |
| chr_2 | g8176 | g8176.t1 | cds | g8176.t1.CDS6 | 28925328 | 28925565 |
| chr_2 | g8176 | g8176.t1 | exon | g8176.t1.exon7 | 28925626 | 28925987 |
| chr_2 | g8176 | g8176.t1 | cds | g8176.t1.CDS7 | 28925626 | 28925987 |
| chr_2 | g8176 | g8176.t1 | TSS | g8176.t1 | 28926450 | 28926450 |
Sequences
>g8176.t1 Gene=g8176 Length=1248
ATGTCGAGTTTATCTCCAATACATCACTCGTCATCATCACATAGCTCAAATTCAAATGAG
GAACACGATCATTCAACACCTCCACCGCCACTTACAATACCGCCGGAAATTCGAATTTTT
CAACAGCAAGAAAATAGCAGTGAAAAAGGACTGAATAATAACCATCAAACTCATGATTTT
CACCAAACACCGTCGCTCAATAATAAAAAATCGTTTTGTATTGATGCATTGTTGGCTAAA
AATAACAGCAATTATGACGATGAAAATGGTGAAAAGGCACATAATCAGTTTGTAAATAAT
AATTATAAGGACAATGTGATTTTAAGAGATCTTAATAAAAGTCCTGATGATGATGCATCA
AGATCGGATTCACCAATGTCATCTTCAACAAGATCATCTCCACCTATCAGTCCAGGATGT
GAAGATCAAAATATTCCTGAAGGATATTTGCCTGAAGATTCTTTTAAACGTCCTATTCCA
CCTGAAATGCGTCAACAAGCGTTCCCTCCACAATTCTATAATATGTATCAACCACAATTA
CTTCTACCCAACAGTTCAGCATTTCATCGTCCCGAAATCAATGGCAAATCATCAATACCT
ATTCCCGGTTTTGTTCCCCATCTGTCAAATCTTGAATTGATTCGACAAGCAGGAATTTTT
TATCCACGAATTACTGATTTAACTGGGCAACATGGATTGTTTGGAAAAACTCGTAGACCA
CGTACTGCATTTACGTCACAACAACTTTTGGAACTCGAAAAGCAATTTAAACAGAATAAA
TATCTATCACGTCCTAAACGATATGAAGTTGCAAGCAATCTACTATTGACAGAAACTCAG
GTTAAAATATGGTTTCAAAATAGAAGAATGAAATGGAAGAGATCTCGAAAAGCTCAACAG
GAATCAAAAAATAAAAATTCCAGTAGCAGTAATAATGAGGACAAAAATCAACAAGAGAGA
TCTTCAGTCTCACAAAATCAATCATCATCCAATATACGAAACGCTCATAATGAGAAAGTT
ATGACAAATCTCACGAATGGCAATAATTTTCATTTTTCAAAAAATATTGAGTCTCATTTG
AGTCAGCAGCACACGATTTTACCGCAACAACATCAAAGGATAGCACTTTCAAGTAAAGAG
GCAGTTCTGGCTAATGAAGAAAGCAGTTATGCGAACAATCATCTTATAAATCGAGTGCAA
CCGAATGTCTTCAATGAGGGAGAGGATATGATTTGGAGAGTAGTTTAA
>g8176.t1 Gene=g8176 Length=415
MSSLSPIHHSSSSHSSNSNEEHDHSTPPPPLTIPPEIRIFQQQENSSEKGLNNNHQTHDF
HQTPSLNNKKSFCIDALLAKNNSNYDDENGEKAHNQFVNNNYKDNVILRDLNKSPDDDAS
RSDSPMSSSTRSSPPISPGCEDQNIPEGYLPEDSFKRPIPPEMRQQAFPPQFYNMYQPQL
LLPNSSAFHRPEINGKSSIPIPGFVPHLSNLELIRQAGIFYPRITDLTGQHGLFGKTRRP
RTAFTSQQLLELEKQFKQNKYLSRPKRYEVASNLLLTETQVKIWFQNRRMKWKRSRKAQQ
ESKNKNSSSSNNEDKNQQERSSVSQNQSSSNIRNAHNEKVMTNLTNGNNFHFSKNIESHL
SQQHTILPQQHQRIALSSKEAVLANEESSYANNHLINRVQPNVFNEGEDMIWRVV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g8176.t1 | CDD | cd00086 | homeodomain | 238 | 296 | 1.09963E-20 |
| 7 | g8176.t1 | Gene3D | G3DSA:1.10.10.60 | - | 225 | 300 | 1.4E-25 |
| 15 | g8176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 49 | - |
| 11 | g8176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 115 | 143 | - |
| 13 | g8176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 121 | 139 | - |
| 14 | g8176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 294 | 335 | - |
| 12 | g8176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 302 | 335 | - |
| 2 | g8176.t1 | PANTHER | PTHR24335 | MOTOR NEURON AND PANCREAS HOMEOBOX PROTEIN | 69 | 375 | 1.7E-57 |
| 3 | g8176.t1 | PRINTS | PR00024 | Homeobox signature | 259 | 270 | 8.3E-8 |
| 5 | g8176.t1 | PRINTS | PR00024 | Homeobox signature | 274 | 284 | 8.3E-8 |
| 4 | g8176.t1 | PRINTS | PR00024 | Homeobox signature | 284 | 293 | 8.3E-8 |
| 1 | g8176.t1 | Pfam | PF00046 | Homeodomain | 238 | 294 | 8.5E-22 |
| 10 | g8176.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 270 | 293 | - |
| 16 | g8176.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 235 | 295 | 22.172 |
| 9 | g8176.t1 | SMART | SM00389 | HOX_1 | 237 | 299 | 9.2E-26 |
| 6 | g8176.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 224 | 295 | 2.4E-24 |
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:0021520 | spinal cord motor neuron cell fate specification | BP |
| GO:0003677 | DNA binding | MF |
| GO:0000981 | DNA-binding transcription factor activity, RNA polymerase II-specific | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K08025 (homeobox protein HB9)
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.
