General information for g7962.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Segmentation polarity homeobox protein engrailed.
Parent gene
- The parent gene g7962 is located on chr_2: 27274704..27277822 (+ 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 | g7962 | g7962.t1 | TSS | g7962.t1 | 27274148 | 27274148 |
| chr_2 | g7962 | g7962.t1 | isoform | g7962.t1 | 27274704 | 27277822 |
| chr_2 | g7962 | g7962.t1 | exon | g7962.t1.exon1 | 27274704 | 27274827 |
| chr_2 | g7962 | g7962.t1 | cds | g7962.t1.CDS1 | 27274704 | 27274827 |
| chr_2 | g7962 | g7962.t1 | exon | g7962.t1.exon2 | 27275039 | 27275832 |
| chr_2 | g7962 | g7962.t1 | cds | g7962.t1.CDS2 | 27275039 | 27275832 |
| chr_2 | g7962 | g7962.t1 | exon | g7962.t1.exon3 | 27275903 | 27275939 |
| chr_2 | g7962 | g7962.t1 | cds | g7962.t1.CDS3 | 27275903 | 27275939 |
| chr_2 | g7962 | g7962.t1 | exon | g7962.t1.exon4 | 27277268 | 27277368 |
| chr_2 | g7962 | g7962.t1 | cds | g7962.t1.CDS4 | 27277268 | 27277368 |
| chr_2 | g7962 | g7962.t1 | exon | g7962.t1.exon5 | 27277492 | 27277649 |
| chr_2 | g7962 | g7962.t1 | cds | g7962.t1.CDS5 | 27277492 | 27277649 |
| chr_2 | g7962 | g7962.t1 | exon | g7962.t1.exon6 | 27277732 | 27277822 |
| chr_2 | g7962 | g7962.t1 | cds | g7962.t1.CDS6 | 27277732 | 27277822 |
| chr_2 | g7962 | g7962.t1 | TTS | g7962.t1 | NA | NA |
Sequences
>g7962.t1 Gene=g7962 Length=1305
ATGGCTTTGGAAGATTCAAGATACTGCTATAGTCCAACGGTCGAATCCAACAGCCCAGCT
CTACCAAATTCACCAAATAGCTTTTCACGAAACTCATCAACAGCTTCATCGCCAACTACA
GTTTGTGATTTTAAAGTCAATCCAAAACATGACATAGATGACGAAGATATGGACATTAAC
GTCGATGATGATGATGAAGATTTGTATAAATCAAGAAAATCTGATAGTCTGAATATTGGA
AAGTTTAGCTTTTCAATCACGAATATTTTAAGTGATCGATTTGGACCGGCCAAGACAACA
GCTTTGAAAACAGAAAATGACTCAAGTGATAGAACAATTTTTCGACCTTTTGAAATTAAA
AATTTTATATGCAATAATGCAAACAACTCAGCGAGCAACAGAACATTTGTGCAAAATTTC
ACTCCATCTTCCGTATTTTTAAATAGCTTTAGATTATCAGACATTTTCGATTATAGTACA
AAGAGTTTATCATCAGAAAATAACAATAATATTAATAGTAATAGTAGCATAAAAAGTGAT
AATAGTTTAAGAAATAATTTGTACAGTAATTTTACAACATCTGCATCATATCCAAAAATT
CAAGAAGAAATTTTAAATGGCCATAAAGTGAAATATCAACAACAATCATCAGTCAATAAT
CATCATCTGGCAGCCCTCAAAATACCAACTGCAATTGGTGGCTTATGTAAGACAATTTCG
CAGATTGGTCAAGAGCCAACCTCACCACCACAGCAATCATTATCGACAACATCATCGACA
TCGTCAACGTCATCACATCAGACAAAAAGCGGTGCAATCGACACGCTTAAATTACAACAG
CCATCAACCGACAGCTTGGACTCGGACGACTGTCAATCAGAGGCTAAAAAAGATGATCAA
AAAATGTGGCCGGCATGGATATTTTGCACTCGTTATTCCGATCGACCAAGTTCTGGTCCT
CGATACCGTCGGCCAAAAGAGAAGAAGGAGAAAGGAGCAGATGATGAGAAGCGACCACGA
ACAGCATTTTCAAATGAACAACTCGCAAGACTAAAGAGAGAATTCAATGAAAATCGATAT
TTGACTGAAAAGAGACGACTTCAATTGAGTGCCGAGTTGGGTTTAAATGAGGCACAAATC
AAAATCTGGTTCCAAAATAAGCGGGCCAAAATAAAGAAAACATCTGGAGTTAAGAATGCG
CTCGCAATTCAGCTGATGGCACAGGGCTTGTACAATCACACTACAGTTCCTCTTACAAAA
GAAGAGGAAGAATTAGAGTTGAGGATGAATGGGCAATTGCCGTAA
>g7962.t1 Gene=g7962 Length=434
MALEDSRYCYSPTVESNSPALPNSPNSFSRNSSTASSPTTVCDFKVNPKHDIDDEDMDIN
VDDDDEDLYKSRKSDSLNIGKFSFSITNILSDRFGPAKTTALKTENDSSDRTIFRPFEIK
NFICNNANNSASNRTFVQNFTPSSVFLNSFRLSDIFDYSTKSLSSENNNNINSNSSIKSD
NSLRNNLYSNFTTSASYPKIQEEILNGHKVKYQQQSSVNNHHLAALKIPTAIGGLCKTIS
QIGQEPTSPPQQSLSTTSSTSSTSSHQTKSGAIDTLKLQQPSTDSLDSDDCQSEAKKDDQ
KMWPAWIFCTRYSDRPSSGPRYRRPKEKKEKGADDEKRPRTAFSNEQLARLKREFNENRY
LTEKRRLQLSAELGLNEAQIKIWFQNKRAKIKKTSGVKNALAIQLMAQGLYNHTTVPLTK
EEEELELRMNGQLP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g7962.t1 | CDD | cd00086 | homeodomain | 337 | 395 | 1.37495E-21 |
| 15 | g7962.t1 | Gene3D | G3DSA:1.10.10.60 | - | 336 | 397 | 2.5E-23 |
| 24 | g7962.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 35 | - |
| 20 | g7962.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 10 | 35 | - |
| 22 | g7962.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 243 | 296 | - |
| 23 | g7962.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 243 | 288 | - |
| 21 | g7962.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 317 | 341 | - |
| 3 | g7962.t1 | PANTHER | PTHR24341 | HOMEOBOX PROTEIN ENGRAILED | 12 | 135 | 3.8E-109 |
| 5 | g7962.t1 | PANTHER | PTHR24341:SF7 | SEGMENTATION POLARITY HOMEOBOX PROTEIN ENGRAILED | 12 | 135 | 3.8E-109 |
| 4 | g7962.t1 | PANTHER | PTHR24341 | HOMEOBOX PROTEIN ENGRAILED | 214 | 434 | 3.8E-109 |
| 6 | g7962.t1 | PANTHER | PTHR24341:SF7 | SEGMENTATION POLARITY HOMEOBOX PROTEIN ENGRAILED | 214 | 434 | 3.8E-109 |
| 7 | g7962.t1 | PRINTS | PR00026 | Engrailed homeodomain signature | 335 | 352 | 9.3E-16 |
| 9 | g7962.t1 | PRINTS | PR00024 | Homeobox signature | 358 | 369 | 2.1E-6 |
| 12 | g7962.t1 | PRINTS | PR00031 | Lambda-repressor HTH signature | 365 | 374 | 6.6E-6 |
| 10 | g7962.t1 | PRINTS | PR00024 | Homeobox signature | 373 | 383 | 2.1E-6 |
| 13 | g7962.t1 | PRINTS | PR00031 | Lambda-repressor HTH signature | 374 | 390 | 6.6E-6 |
| 11 | g7962.t1 | PRINTS | PR00024 | Homeobox signature | 383 | 392 | 2.1E-6 |
| 8 | g7962.t1 | PRINTS | PR00026 | Engrailed homeodomain signature | 398 | 415 | 9.3E-16 |
| 2 | g7962.t1 | Pfam | PF00046 | Homeodomain | 337 | 393 | 5.2E-21 |
| 1 | g7962.t1 | Pfam | PF10525 | Engrailed homeobox C-terminal signature domain | 395 | 424 | 3.2E-16 |
| 18 | g7962.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 369 | 392 | - |
| 19 | g7962.t1 | ProSitePatterns | PS00033 | ‘Homeobox’ engrailed-type protein signature. | 405 | 412 | - |
| 25 | g7962.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 334 | 394 | 21.362 |
| 17 | g7962.t1 | SMART | SM00389 | HOX_1 | 336 | 398 | 6.1E-25 |
| 14 | g7962.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 332 | 394 | 5.99E-22 |
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:0005634 | nucleus | CC |
| GO:0003677 | DNA binding | MF |
| GO:0000981 | DNA-binding transcription factor activity, RNA polymerase II-specific | MF |
| GO:0007275 | multicellular organism development | BP |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K09319 (homeobox protein engrailed)
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