General information for g804.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Homeobox protein ceh-9.
Parent gene
- The parent gene g804 is located on chr_3: 6111643..6126822 (+ 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 | g804 | g804.t1 | isoform | g804.t1 | 6111643 | 6126822 |
| chr_3 | g804 | g804.t1 | exon | g804.t1.exon1 | 6111643 | 6112426 |
| chr_3 | g804 | g804.t1 | cds | g804.t1.CDS1 | 6111643 | 6112426 |
| chr_3 | g804 | g804.t1 | exon | g804.t1.exon2 | 6115792 | 6116099 |
| chr_3 | g804 | g804.t1 | cds | g804.t1.CDS2 | 6115792 | 6116099 |
| chr_3 | g804 | g804.t1 | exon | g804.t1.exon3 | 6126012 | 6126023 |
| chr_3 | g804 | g804.t1 | cds | g804.t1.CDS3 | 6126012 | 6126023 |
| chr_3 | g804 | g804.t1 | exon | g804.t1.exon4 | 6126112 | 6126133 |
| chr_3 | g804 | g804.t1 | cds | g804.t1.CDS4 | 6126112 | 6126133 |
| chr_3 | g804 | g804.t1 | exon | g804.t1.exon5 | 6126347 | 6126822 |
| chr_3 | g804 | g804.t1 | cds | g804.t1.CDS5 | 6126347 | 6126822 |
| chr_3 | g804 | g804.t1 | TTS | g804.t1 | 6127113 | 6127113 |
| chr_3 | g804 | g804.t1 | TSS | g804.t1 | NA | NA |
Sequences
>g804.t1 Gene=g804 Length=1602
ATGTTGGAATTAAGTGATTACGATGAAAACGAAGAAGCATCAGCTCATAAAAGCACTAAA
AATAATAATAATAGTGGCAATGTGGAATGTGTTGAAGTGAATAATGGGATTAAAATGGCT
AATAAACGATCAAAGTCGTTGGAGAAAGAAAAGGAAGACGCTGTTGATGCTATTAAGTAC
CAGACATCGTCATCTAGTAAAAGACCCGAGACTGCACCTCCTCAACTTGTTCCGCACTCT
TCTTCATCACCAACAAATACATCAAATAATAACTCAATGACGATGGTCAACAGTTCCGAT
TTGGATTTTGATGTTAATAAGGAAGTGAAAAGTGAGGATGAATTTAAGACTGAAGATTCA
ATGAATGAAAATAATAAATTAGTATCAGCAATGACTTGGCACGAACATATCTACAGAAAG
CCACCAAAAATTCCTACGCCATATTCAATAATTGACATTCTCCATTGGGGCTCGAGTACA
AAGAAAAAATCGCATTTGGATATCGATAATAGTGATAAAAATAACAACCATAATCATTCA
AATCGATCTTATCAAAATGTTGAGCCATCAACGCTTCAGCATTTACTTAATTTGAATATC
AATTCACCACCAAAAAGTCCACGAAGTGCAAGCAATAATAATCACAATAATAGTGGAATT
AGCAGTCGTGGGATGTCATTTAGTGAAACAAGTGAGGATGAAAGTGTTGCTAGTGATCAG
CCATTAAATTTATGTGTTATAAAATCAAGAGATTCATCACCTGGTACTGAGAAAAATAGA
AAAGATTTGCCAACAAAGTCAATTTTAAAGCGAAAGCGCTCAATTGATGTTACATCCGAT
TCATATTTATCAAATGATTCAATGAGCTATAAAGAGACATCAACAAATGGAAAAGAAATT
GATGACGATGAATCGATTAATGAGGATGGATTTGATGAACAATCGGCAGACGGTAAACGA
AAGAAAAAGGCAAGAACGACATTTACAGGACGACAAATTTTTGAGCTTGAGAAGCAATTT
GAAGTTAAGAAATATTTGAGTTCAAGTGAAAGGAGTGAGATGGCGAGACTATTGAATGTT
ACTGAAACACAGGTCAAAATATGGTTTCAAAATCGAAGAACAAAATGGAAGAAACAAGAA
AATATAACAAATGCAGAAGCAAGTGAGCATAAAACAAATGGTTCAAAGTCCTCACCATCT
TCCGAACAGCATTCAACTGAAATTCAAAATGCAGCTAAATCAACAACGAAATCTGTGGCA
GCAGAATTGAGCGCAAAAATCACAGCAAAGCAAAATTCAAGACTAAAGCAGCATCAGCAA
ATGTCTGTAAATGGTACAAAAATCAATAAGCATATGGAGCCGCCAAAAATGAAATCCTCG
CATCATCCACATGTACTGAATAATCATAAAAGTAGCTACAGTGATATGCCAACATTTATT
GATACGAAACATTCACCAGCATTGCTAAAAGGAAGCTTTCATCATCATACGAATTTTCAT
GATGTCGAGAGTCATTTATCAAGTTCAAAAATATCAATAAGCGATTTTAAGTCAAAAATT
TCAGCTCCTGTACCTTTGAATTTAAAAAGAAGTTATCTCTGA
>g804.t1 Gene=g804 Length=533
MLELSDYDENEEASAHKSTKNNNNSGNVECVEVNNGIKMANKRSKSLEKEKEDAVDAIKY
QTSSSSKRPETAPPQLVPHSSSSPTNTSNNNSMTMVNSSDLDFDVNKEVKSEDEFKTEDS
MNENNKLVSAMTWHEHIYRKPPKIPTPYSIIDILHWGSSTKKKSHLDIDNSDKNNNHNHS
NRSYQNVEPSTLQHLLNLNINSPPKSPRSASNNNHNNSGISSRGMSFSETSEDESVASDQ
PLNLCVIKSRDSSPGTEKNRKDLPTKSILKRKRSIDVTSDSYLSNDSMSYKETSTNGKEI
DDDESINEDGFDEQSADGKRKKKARTTFTGRQIFELEKQFEVKKYLSSSERSEMARLLNV
TETQVKIWFQNRRTKWKKQENITNAEASEHKTNGSKSSPSSEQHSTEIQNAAKSTTKSVA
AELSAKITAKQNSRLKQHQQMSVNGTKINKHMEPPKMKSSHHPHVLNNHKSSYSDMPTFI
DTKHSPALLKGSFHHHTNFHDVESHLSSSKISISDFKSKISAPVPLNLKRSYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g804.t1 | CDD | cd00086 | homeodomain | 322 | 380 | 3.00561E-21 |
| 9 | g804.t1 | Coils | Coil | Coil | 37 | 57 | - |
| 8 | g804.t1 | Gene3D | G3DSA:1.10.10.60 | - | 285 | 381 | 3.5E-25 |
| 20 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 90 | - |
| 14 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 17 | 31 | - |
| 17 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 42 | 57 | - |
| 19 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 58 | 90 | - |
| 16 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 204 | 270 | - |
| 22 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 204 | 238 | - |
| 21 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 253 | 270 | - |
| 15 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 288 | 323 | - |
| 18 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 379 | 417 | - |
| 13 | g804.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 386 | 417 | - |
| 2 | g804.t1 | PANTHER | PTHR24340 | HOMEOBOX PROTEIN NKX | 107 | 455 | 9.4E-70 |
| 3 | g804.t1 | PANTHER | PTHR24340:SF70 | NK7.1, ISOFORM A | 107 | 455 | 9.4E-70 |
| 4 | g804.t1 | PRINTS | PR00024 | Homeobox signature | 343 | 354 | 2.1E-6 |
| 6 | g804.t1 | PRINTS | PR00024 | Homeobox signature | 358 | 368 | 2.1E-6 |
| 5 | g804.t1 | PRINTS | PR00024 | Homeobox signature | 368 | 377 | 2.1E-6 |
| 1 | g804.t1 | Pfam | PF00046 | Homeodomain | 322 | 378 | 4.7E-20 |
| 12 | g804.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 354 | 377 | - |
| 23 | g804.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 319 | 379 | 21.265 |
| 11 | g804.t1 | SMART | SM00389 | HOX_1 | 321 | 383 | 4.0E-24 |
| 7 | g804.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 312 | 380 | 6.42E-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: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 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.
