General information for g8752.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Menin.
Parent gene
- The parent gene g8752 is located on chr_2: 32805616..32807037 (- 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 | g8752 | g8752.t1 | isoform | g8752.t1 | 32803286 | 32805616 |
| chr_2 | g8752 | g8752.t1 | exon | g8752.t1.exon1 | 32803286 | 32804249 |
| chr_2 | g8752 | g8752.t1 | cds | g8752.t1.CDS1 | 32803286 | 32804249 |
| chr_2 | g8752 | g8752.t1 | exon | g8752.t1.exon2 | 32804391 | 32804982 |
| chr_2 | g8752 | g8752.t1 | cds | g8752.t1.CDS2 | 32804391 | 32804982 |
| chr_2 | g8752 | g8752.t1 | exon | g8752.t1.exon3 | 32805061 | 32805616 |
| chr_2 | g8752 | g8752.t1 | cds | g8752.t1.CDS3 | 32805061 | 32805616 |
| chr_2 | g8752 | g8752.t1 | TSS | g8752.t1 | 32805671 | 32805671 |
| chr_2 | g8752 | g8752.t1 | TTS | g8752.t1 | NA | NA |
Sequences
>g8752.t1 Gene=g8752 Length=2112
ATGGATTTAAAAGTTTGCGAGTTTTTTCCATTGAGCTCACCGGAAAGTGTGATAAATTTA
TTTAAAAATCAACTGGAGAATGACGAAAAAGATGTTAATTTAACGCTAGTTTCGATTTGT
TTGGGCTTTTTTGAAAATATTCTTTGCAATGAAAATCGCGAAAATAAATCAACTTTTCCG
AGTTTAGATTATAAGGAATTTGATGAATTATATAAAAAGTTCAAATCGATTGTCAGCATT
GCTGAAACAGGCACTCAAACATCACATGCAACTAAAGGCAAATCAAAGTCTACAGTTGCG
GCTACTGAGAGTCAGGAGCCAAAAATTGCAACGCGAGAGAAAATTAAGAAAATATCTGAT
GTTATATGGAATTCCTTGCTAAGATCATCATACAAAGACAGGATCCATTTGCAATCAGTG
TATAGCTACTTAATAGGAAACAAACTAGATTCGTTTGGTGTTGCTCTTGTAACAGTTGCT
GCATGTCAACTACTAAACTATAAAGATGTCCATCTTGCATTAGGAGAGGACCACGTTTGG
ATTGTTTTCGGTGAAGGAGAGGAAACAATGGAAATAACGTGGCATGGTAAAATTGCTGAA
GATAAGAGAGGACAGTCAGTTATTCCAGGAATTGCTTGCAGCACATGGTTATATCTGGCT
GGTAATCCTGTCATTTGCACACGCTTTACTGAACTTGCTGTCATGGTTCTCTCAATAAAT
CCTCACTTGAGTCCAACAAGTGTTTGCGCAGAATTAGCAGATTTACAGCAACAACTTTTG
TGGATATTGTATGATCATGGACATTTAAACAATTATCCAATGGGATTAATGTATCTCGGA
GAAATGGAAGAAAATCATCCGACTACAAATCGACCAACATGCGAGCAACTTTATGAAGAA
GCAATACAGTCATCATACAAGTACTATAAAAATCATCATGTTTATCCTTATAGTTGCAAA
GGCAATTATTATTATCGAAATGAAAATTTTCGTGATGCATTTAGATGTTGGGCTGATGCT
GGTGATGTGATTCGTCTGTACAATTATTCGCGAGATGATGAGGAAATTTATAAAGAATTT
TTGGATATTGCTAATGAGCAAATCCCTCAAATTATGAAAACTGAATCAAGTGGTCATTCT
GCCAAAAGCATTCTACGAGATCCTTATTGTTTTGCAAATTTATTGCGATTTTATGATGGC
ATTTGTTTATGGGAAGAAGGATCTTTGACACCTGTTTTACATAGTGGTTGGGCAAAGCAA
CTTTGTTTTTCGATCTCGAAATTTGATTATGACATAAGATCTCAAGTGAAAATAATTATA
AAATCAGACTTTAATAATGATGATGATAATAACAATAAGTCATTGGAGAGTGAGTCAAAA
AAGAATGATAGCGTTATTAAGCAACAACAGTCACAACAAACTGAACCGCCAATGAAAAGT
CCGACATCAAATGGTGATGTAAAAAATGAATTTCCAATGTTGCCATCACTCGATGAATTA
ACAGCCGCATGTGGTGAAAAGATTTTAAATCCAGATTTTCTTCTACATGGTGGTGTTCCA
TTCACTGAGTCAACTGATGATGTAGATGAAGAAAAAGATAAGACTGCAAATATAAATGGA
AGTGTCATTGATAAAAAAGAGTCGAGCAAAAATGCTATTGCTGAGACTATAAATAATAAT
TCAGTCAAAAGTCCCAAAATTGATGAAAAAGTTCTCTCGCCAATACAAAAAGATTTAGCA
TCACCGCAATCAATTGCATCACCACAAATTGCATCGCTATCTCCTGCTTGCACAACAGCA
TCTGTCGAAGACAACAAAAGTGAAGTGCTAAAGTCATCTGAAGAAGATCATAGCAATGAC
ACAAATAATAATAATGGAAAAGTTGAGACATTTGATGATTTTGACAATCCAAAGAGGCCA
GTTATCACTTTATCATCGCGCAAAATGCAAGGATTAAAAGATCTCTTGCTATCAGAAAAA
CTCAACACGAATGCAATTTCATTGCAAATAACAGCACAAAGTCACATTGGCAACAAGAAA
TCGCGAAGTTCCTTGGCACATGAAGAATCAATTGCTGATGGTTCTCGGCCTAAAAGGACT
AGGCGCGAATGA
>g8752.t1 Gene=g8752 Length=703
MDLKVCEFFPLSSPESVINLFKNQLENDEKDVNLTLVSICLGFFENILCNENRENKSTFP
SLDYKEFDELYKKFKSIVSIAETGTQTSHATKGKSKSTVAATESQEPKIATREKIKKISD
VIWNSLLRSSYKDRIHLQSVYSYLIGNKLDSFGVALVTVAACQLLNYKDVHLALGEDHVW
IVFGEGEETMEITWHGKIAEDKRGQSVIPGIACSTWLYLAGNPVICTRFTELAVMVLSIN
PHLSPTSVCAELADLQQQLLWILYDHGHLNNYPMGLMYLGEMEENHPTTNRPTCEQLYEE
AIQSSYKYYKNHHVYPYSCKGNYYYRNENFRDAFRCWADAGDVIRLYNYSRDDEEIYKEF
LDIANEQIPQIMKTESSGHSAKSILRDPYCFANLLRFYDGICLWEEGSLTPVLHSGWAKQ
LCFSISKFDYDIRSQVKIIIKSDFNNDDDNNNKSLESESKKNDSVIKQQQSQQTEPPMKS
PTSNGDVKNEFPMLPSLDELTAACGEKILNPDFLLHGGVPFTESTDDVDEEKDKTANING
SVIDKKESSKNAIAETINNNSVKSPKIDEKVLSPIQKDLASPQSIASPQIASLSPACTTA
SVEDNKSEVLKSSEEDHSNDTNNNNGKVETFDDFDNPKRPVITLSSRKMQGLKDLLLSEK
LNTNAISLQITAQSHIGNKKSRSSLAHEESIADGSRPKRTRRE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g8752.t1 | CDD | cd14456 | Menin | 8 | 439 | 0.0 |
| 6 | g8752.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 450 | 486 | - |
| 4 | g8752.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 464 | 486 | - |
| 5 | g8752.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 604 | 634 | - |
| 3 | g8752.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 607 | 622 | - |
| 8 | g8752.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 673 | 703 | - |
| 7 | g8752.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 681 | 703 | - |
| 2 | g8752.t1 | PANTHER | PTHR12693 | MENIN | 6 | 702 | 1.7E-196 |
| 1 | g8752.t1 | Pfam | PF05053 | Menin | 7 | 690 | 1.7E-217 |
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 |
KEGG
Orthology
- This transcript has been annotated with K14970 (menin)
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.
