Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Mitotic spindle assembly checkpoint protein MAD1.

Parent gene

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 g7106 g7106.t1 TTS g7106.t1 21218437 21218437
chr_2 g7106 g7106.t1 isoform g7106.t1 21218523 21220921
chr_2 g7106 g7106.t1 exon g7106.t1.exon1 21218523 21218739
chr_2 g7106 g7106.t1 cds g7106.t1.CDS1 21218523 21218739
chr_2 g7106 g7106.t1 exon g7106.t1.exon2 21218799 21219598
chr_2 g7106 g7106.t1 cds g7106.t1.CDS2 21218799 21219598
chr_2 g7106 g7106.t1 exon g7106.t1.exon3 21219660 21220592
chr_2 g7106 g7106.t1 cds g7106.t1.CDS3 21219660 21220592
chr_2 g7106 g7106.t1 exon g7106.t1.exon4 21220649 21220921
chr_2 g7106 g7106.t1 cds g7106.t1.CDS4 21220649 21220921
chr_2 g7106 g7106.t1 TSS g7106.t1 21221100 21221100

Sequences

>g7106.t1 Gene=g7106 Length=2223
ATGGAAGACGCTGCTAATTTTGATAAAATCATTAATTCGTCTCAAAAGCTGATACCTAAA
CGGCTTTCATTTGATTTTCTTAATAATACATCATCATCTATCGCAGCGAATGAAAGTTCT
ATCCACAAGAAAAGAAAGTTCACAGATATGGTTGATCAAGAGCAAAGCAAAAGAGATGAA
ATCAATGAATCACTTAATAGCAGTACTTCATCGTTTTGTTCATCATGGGAAACAAAATTA
TTACGCTCTGATCTTATCGAAGCGCAGTCTAGGATTACACAACTAAAGAAAGAAATACAG
CATCAGTCAACAATACAAACAGAATTGGAAATGAAGTTTGCTACTAAAGAAAAAGCACTA
GAGAATGAGAAAAATTGTCTAAAAAACAAAACTAGTGAATATGAACGAGTTTTGAAAAAA
AATCGTAGAAACGAAAGTCTAATGAAGGAAGAGATTGTAAAATTGAAAAATCAGATAACT
ATTCAGAAGCAAAATTTTGATCAACAAATTTTTGAACTTCAAAATGAAAATGAAAGTCTT
AAAGAAGAGTTGATATATACAAGTAATGAATTAAATAATAGAATAAGTGAAATTAATCGA
GAAAATGCTGAATTAACTACTCGACTAATAACAGCAGAAACTGAAGCTGCTACATTTCAA
ACTTCCAATAAGGATTTGAGACAGAAGCTTGAAGAATTTAAATCGCTTAAAACTGATTTT
GAGCAAGAAAAAATTAAACACCAAGAAGCTCTCCTCAAAATTAAAGATCTCGAATATGAA
GTTAGTAGTTTTGGTGATTGGAAAGACATGGCTAAAGCATCTCAGTCTCGTATGAATACA
ATGTCAGATATTGAGAAAGAAGTGACTCGTCTACGCCAAGTCAATAAAAATTTGCATGAT
TCATTGGGAAATAAATTACTACTTGAAGAGGAAAATTATAGTCTAAAAACCCGGTTGGAA
CGACTTGAGCAATCAAGTGTCAATCAAATTAAATTAGAGACACATATTGATGCATTGCAA
AAAGAATTGAAAGAATGGAAGCAACTTGGCGTCGATTTTGTTCAAAAAGGAGCTGCCAAT
AATCCTATCAATGTTCGTTCATATATTGAACAGCTCATGCATCGTGATTTATTGCTCGTT
AGCGAAAAAACAAGTTTTTCATCTGAAAAATCCACTATGGAAAGTCAAAAGACAGATTTG
AAAAATCAAAATGATAGTTTAGTAAAACAAAACGAGTCATTAGAAAAATCTCTTAAAGTA
CATCAATCAGTAATAACTAAACTTCAAAGAAAGCTAAAACTTGTTCAATCTGAAAGAGAT
GCACATAGGCAGTTACTTGATAGTTATGAAAAAGATTTAACAGTGACACAAGGTGCTCAA
ACTATTAGTTCTCAAGAAACTCAATTTCGACTGCGTATTGACATGCTAACAAATTCTCTG
GCTGGCTATAAAGAATTGTGTGCAAAGCTTGAAGCGGAAATGGCCGAATTACAAGGCAAT
CCAAAAATTACAATAGATTCAACTGTTTGCTCTAACGAACAATACAAGATTTTACGAAAG
GACTTAGAAGTACTTCGCATTGAAAACGAAAAACTAAGAAAACGTAAGAGTGAGCTTGAA
ATTGAAATAGAAAACATTACTTTGCGCACTAATGTAATGGACGATGAAAGATTTAAAATC
ATTCATTTTGCAAATAATCCTGCAAAAATCGCACAAGAGCAGGCAGCAAATGAAGTTATT
AAACTTCGAGCTGAAGTGGAAAGACTTAAGTTACGTAATCGTAAATTGGAGGAAGGAAAC
GATGATTTAAATACACGTTCAAACGAAACATTGAATATGACGCTAAATATTAAAGATATG
CAGAAACTTCGTGAGGAACATAAAACACTTCAATCTAAGTATCGCGAGAACGAGGAGATT
TTCAAGAGTATAAATCAAGAACTACGTGAAGTGGTTTACATGTTGTTTGGATACAAACTT
GATCGCTACGGGAACAGCAATTACAGAATCACTTCAATGTACGCAGATAATGAGAATGAT
GAATTGCTTTTTCGATTGAATGAAATGGGTTCCCTGGAGATGCTTGAGAGCGATTATTCA
AAGTTGCTAAGTGGCTTCATGAACCAATATCTGAACGGACCAAATGGTTCATTACCTGCA
TTCACTTCGGCCCTCACACTTGAACTTGTAAACCGAATGACTGTCACAAGTGTTTCACTT
TAA

>g7106.t1 Gene=g7106 Length=740
MEDAANFDKIINSSQKLIPKRLSFDFLNNTSSSIAANESSIHKKRKFTDMVDQEQSKRDE
INESLNSSTSSFCSSWETKLLRSDLIEAQSRITQLKKEIQHQSTIQTELEMKFATKEKAL
ENEKNCLKNKTSEYERVLKKNRRNESLMKEEIVKLKNQITIQKQNFDQQIFELQNENESL
KEELIYTSNELNNRISEINRENAELTTRLITAETEAATFQTSNKDLRQKLEEFKSLKTDF
EQEKIKHQEALLKIKDLEYEVSSFGDWKDMAKASQSRMNTMSDIEKEVTRLRQVNKNLHD
SLGNKLLLEEENYSLKTRLERLEQSSVNQIKLETHIDALQKELKEWKQLGVDFVQKGAAN
NPINVRSYIEQLMHRDLLLVSEKTSFSSEKSTMESQKTDLKNQNDSLVKQNESLEKSLKV
HQSVITKLQRKLKLVQSERDAHRQLLDSYEKDLTVTQGAQTISSQETQFRLRIDMLTNSL
AGYKELCAKLEAEMAELQGNPKITIDSTVCSNEQYKILRKDLEVLRIENEKLRKRKSELE
IEIENITLRTNVMDDERFKIIHFANNPAKIAQEQAANEVIKLRAEVERLKLRNRKLEEGN
DDLNTRSNETLNMTLNIKDMQKLREEHKTLQSKYRENEEIFKSINQELREVVYMLFGYKL
DRYGNSNYRITSMYADNENDELLFRLNEMGSLEMLESDYSKLLSGFMNQYLNGPNGSLPA
FTSALTLELVNRMTVTSVSL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7106.t1 Coils Coil Coil 78 98 -
14 g7106.t1 Coils Coil Coil 117 215 -
9 g7106.t1 Coils Coil Coil 223 243 -
11 g7106.t1 Coils Coil Coil 281 301 -
12 g7106.t1 Coils Coil Coil 305 325 -
8 g7106.t1 Coils Coil Coil 329 349 -
15 g7106.t1 Coils Coil Coil 390 452 -
16 g7106.t1 Coils Coil Coil 473 500 -
13 g7106.t1 Coils Coil Coil 515 549 -
7 g7106.t1 Coils Coil Coil 572 606 -
6 g7106.t1 Coils Coil Coil 620 640 -
5 g7106.t1 Gene3D G3DSA:3.30.457.60 - 657 736 3.1E-21
2 g7106.t1 PANTHER PTHR23168:SF0 MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD1 39 732 5.3E-80
3 g7106.t1 PANTHER PTHR23168 MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD1 MITOTIC ARREST DEFICIENT-LIKE PROTEIN 1 39 732 5.3E-80
1 g7106.t1 Pfam PF05557 Mitotic checkpoint protein 82 734 8.9E-114
4 g7106.t1 SUPERFAMILY SSF75704 Mitotic arrest deficient-like 1, Mad1 508 601 2.88E-21

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

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.

Raw TPM values