General information for g261.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mitotic spindle assembly checkpoint protein MAD2A.
Parent gene
- The parent gene g261 is located on chr_3: 2127403..2128103 (- 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 | g261 | g261.t1 | TTS | g261.t1 | 2127319 | 2127319 |
| chr_3 | g261 | g261.t1 | isoform | g261.t1 | 2127403 | 2128103 |
| chr_3 | g261 | g261.t1 | exon | g261.t1.exon1 | 2127403 | 2127968 |
| chr_3 | g261 | g261.t1 | cds | g261.t1.CDS1 | 2127403 | 2127968 |
| chr_3 | g261 | g261.t1 | exon | g261.t1.exon2 | 2128034 | 2128103 |
| chr_3 | g261 | g261.t1 | cds | g261.t1.CDS2 | 2128034 | 2128103 |
| chr_3 | g261 | g261.t1 | TSS | g261.t1 | 2128192 | 2128192 |
Sequences
>g261.t1 Gene=g261 Length=636
ATGTCTAAAACAGCGACTAAAAATTGCATAACACTTAAAGGATCAGCTGCCATCATCAAA
GATTATCTCAATTATGGCGTTAATTCAATATTATTTCAAAGAGGAATCTATCCAGCTGAA
AACTTTATGCCTCAACAACAATACGGATTAACAATCTTCATGTCAAAAGACGAAAAAATC
ATGGAATTTTTGAAAAATGTTCTCGGACAATCTGAAAATTGGCTCGCAAAGAATCAAGTG
GAGAAATTTTCTTTAATTATAAGTAATGTACACACAAAAGAAGTTCTTGAATGTTGGGAT
TTTAAAATAGACTCAGAAATCCCATCAGATCAAAATCAAGATCCAAATATCGATCCAAAT
AATCCACCTACATCATCAAAAGAATTGAAAAAGATTCAACTAGAAATCGGAGCCGTAATG
AGACAAATAGCCGCAACAGTTTCTTATTTGCCACTTCTGGATTGCATTTGCTCGTTTGAT
CTGCTTGTTCACACTTTAAAAGATTGTGATGTACCTGAAAATTGGAACGAAACAGAAAAT
GTAGTGATAAGGAATAAGCAAACTGTAAGTTTGAAGTCCTTCTCGACTGGATTGCAAAAA
GTCAATACAGTCGTAAGCTACAAACTGAATGAATAA
>g261.t1 Gene=g261 Length=211
MSKTATKNCITLKGSAAIIKDYLNYGVNSILFQRGIYPAENFMPQQQYGLTIFMSKDEKI
MEFLKNVLGQSENWLAKNQVEKFSLIISNVHTKEVLECWDFKIDSEIPSDQNQDPNIDPN
NPPTSSKELKKIQLEIGAVMRQIAATVSYLPLLDCICSFDLLVHTLKDCDVPENWNETEN
VVIRNKQTVSLKSFSTGLQKVNTVVSYKLNE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g261.t1 | Gene3D | G3DSA:3.30.900.10 | Cell Cycle | 2 | 211 | 0.000 |
| 2 | g261.t1 | PANTHER | PTHR11842 | MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2 | 2 | 210 | 0.000 |
| 3 | g261.t1 | PANTHER | PTHR11842:SF11 | MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2A | 2 | 210 | 0.000 |
| 1 | g261.t1 | Pfam | PF02301 | HORMA domain | 15 | 197 | 0.000 |
| 6 | g261.t1 | ProSiteProfiles | PS50815 | HORMA domain profile. | 13 | 205 | 38.693 |
| 4 | g261.t1 | SUPERFAMILY | SSF56019 | The spindle assembly checkpoint protein mad2 | 8 | 209 | 0.000 |
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:0007094 | mitotic spindle assembly checkpoint signaling | BP |
KEGG
Orthology
- This transcript has been annotated with K02537 (mitotic spindle assembly checkpoint protein MAD2)
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.
