BtaINT0090898 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011032 | MCPH1
Description
Bos taurus microcephalin 1 (MCPH1), mRNA. [Source:RefSeq mRNA;Acc:NM_001103315]
Coordinates
chr27:4339692-4343004:+
Coord C1 exon
chr27:4339692-4339835
Coord A exon
chr27:4339836-4342914
Coord C2 exon
chr27:4342915-4343004
Length
3079 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
AGTTGTGATTGTGTTTTCAGCCT
3' ss Score
5.38
Exon sequences
Seq C1 exon
GTACCAATGTTCCTGTTCTCTCATTTGAATCTAATGGCTCGTTGGTGTACAGTCCGACAGGTAAAGTCTGTAGGGGCCACCACAGTGCAATGAAGAAGAGGCTGCAGGAGATGAAGGAGAAACGGGAAAACCTTTCCCCCACCT
Seq A exon
GTAAGTGCTGGCACTTGACACAGGGAGAATTGTGAAATAGGTGAATCAATCGTGGAAAGGGCTTTTTCTTTTACATAATTATTTTAGCTGATGTTTCTTTATTTTAACTGTTTCAGAGTAGACTTTGTTGATACTTTCTTCCAGAAAATCTTTTGCTTTATTCTGATTTTTTAAGAATATAGTGGGTTTTTAGTATTCTCCAGGTTTAAAACCCTATTTGTTGTATACCTTTGCTATTTAATATATTTGGGATTTTTCTTTCTTAAAAAATTAATCATTCCCCTCTTCTGAAGTTTGCTTTAGATTAAGTATCTAATGCTTCAGTTTACCTTTTACTTTTATTTCTTTTATCTTAAATTTTTAAGTAATACACAAGCATGTTTTCATAAACATTGACCAGTGTATTGTTTGTAATAAACCTCCGTCTTGATTCCCACCTAATTCTCCTCTGCCCCTGGGTAACGTGAGTTTTGTGTTTCTCCAGGTCTTTTTCAAGTGGGTCGTCCATGTAGTCATGAAAAAGAACAGGTTTCTGTATCTTTCTTTGCAGTGGTGTAATTTTTCTTTACCTTAATTAGATTGTGGCATACTTCTTACTTTAAACCTTTTTTCATTTAGAAGTATCTTGGTGTAGAATATCTCTCTCTTTTTTTTTAAGATGTTTCATTGTCTATTTTTCTAGTTTTTCTTTTTAGAGATAGTGCTGCAGTTTTATTTTCTTTCTTTTAGCTGCATGGTATGTGGTCATTTTCCTTTTTGGCCATCCAGCTTGCTCCCTACCGTTTGCTCTCATAGCCCACATGCTAGTGGACATGCTTCTACATGAATACGTTTCTGTGTATTTCATGTATTTGCAATAATATTAAGTCACGAAGGCAGACTTTAAAGCTTTTGGTAGATATTGTCAAATTGCCCTTCAGAAAGTTTGTGCCATTTCACCCTTTGCCAGTCGTTTATGAGAACTTCAGGGTCTCACCCTTGGTAAACTGGATGGCATTAGTCTTCACATCTCTCTCAATCTGAGATGGAAACATTGCAGTTCTCTGTTTAATTTGCTTTTGAGGTCGCCAGTGTGTTTGCTAGTGAGGTTGAAAGTCTTCATACCACTGACTGCATTTAAATGTTATGCTCTGTACATTATTTCTGAATCTTTGTACAACTGCCTATTACGTATTACTTTCTTTCTGATTTATAAGAGCTAATTACGTGTTACAAGGATTCTCTCCCAGCTTCTTGTGTGAGCACTTGTACTTATGTAGGAAGCACTCAGCAAATAGACTGTTGAATAACATGCACAGACTCTGCTGTTTATCATTTAACATGCGGTGACTTGTAAGAAACAGATACGTTATGTTTAAGGTAGACAAACCTGTTTGTCTTTTCCTTCTGGCCTTCAGGATTCCTGTGATGTGTAGAACTCCTCCTGCACAAGGTTTTAAAGTTGTTGTAGCTGTTACATTTTCTTCTATTACTCTTACAGTTTAAGGTTAGTTATTTCATCTGTCCTGAATCTGTGTTTGTATATCATATTGCAGCGGGCAGTTAAGGTTTTAAGGTTAGTTGTGGCTGCCAATAACAGATAAACATGTTGCGTTTCTTTGTCCTGACAAAAGAGGAGGCAGGTCTGTGTTCTGAGTGTTCTGAAGAGCCTGGGCCCCATCTTCCTGCCCTGCCTTCATCGGGGCCAGTTCCCTGTGAGCAGCCCCACCAGGTTCTGTCCGCTGCCACTGCCGGGTTCCGCTGGCCAGACGCAGTCCTGTGGCCATTCCTGGTTGCAAGTTAAGTGCAACCATTTATGGCTCAAGAGCTGCAGAGGCAAAAAGGCACTCTAGATAAGCAGGAAATATAATACAGTTCTGTGTGTTTGTTTTCATATATCTAATTTAATCTTCCAGTTAACTTTAGAATGGCCAGTGGTATTCAGGATGACATAGCTAAGGGAACGCAGTAGTTTTAGCCTAGGAAGTAGGAAACAAAACCAAGTCGTCTGCAGGGCCTGGCAAACAAGACTGACATGTAGTCTTAACTGGGATGTGTATTTACACTAATTAAATTTGGTTCTGTTGTAAGAGGAAGATGGAAATGGTTGTTGAGGTAGGACACTACCAATGTCCCAGGGGAATATCCAAATTGGTTCAGCAAATAATTGTGTATTTGCCTTTATGTGTATGTGGAGTAATTTGCCTTAGACTTTACTCCATTGCTTTGCAGTGTTAATTGTGCTACATAACTGCCTCCGGCACAGTTTAAAACAACTGAAAATTTTGTTTCTGTGCTTACCTTCCTTATCTTGGTTTATTCTCATTTTATAATTGTTTTCTCAGAAAAGTATCCTTTATAGTCTCCTCAAAAAAAAGTCTTTGTCTGTGTGACCAGGGTATCAATTTTGTTCCTGATCTGCATGGCCTTTGAAAATAACACCCATGGTCTTGCTTGTTAAGTCACTGGTCACCTGAAAGTCCCCTATGAAACCTCCAGGCTTTGTCAGTCTCTGCACGCTGCACATTTGGGGCTGGGTGTTTCTTTGCTGTTGCAGAGTCCTGTGCCTGACAGAACGTTCAGCAATATCCCTGGCTTCTGCCTGCTAGATGCCCGAAACACGCTCACGGTCCACCCCACCCAACCCGTGATGTCCAGCGGTGTCTGCAGGGCGCCCAGGCGACCCCTGGTTGAGAACCACTACTTTGCTCAAAGAGGCAGCTGTCTGTGATTATTGTGAAAAAAGGCCTTGACCATGGAGCAGTGAGACTGACTGAAACGCTCTGTTTGCCTCTGTTGAGCTTCTGCTTAGGTTCAAGGTGACCGACTCCCCAGATCCCTTCCAAATTTTATTATCCTAGGGGTTCATGCCTTTTTTATGGAATGACTTGTATAAACTATATTTTAATGACTCTTATCAGCAGTAGACTTGAGTAAGACATAGTTTGTGTGCTCATCGTGCTGCTGAAGTCTAGAATGGGAAGTACCAGGAGTAAGTTCTGTGTGTCATACAAGAGCTGAACGAGTGGGCCTGCTGTCGGCCTCATCTGCTCCCAGAGCTCAGAGCTGTGTTAATGAGGAGTTGTGATTGTGTTTTCAG
Seq C2 exon
CCTCCCAGATGATTGAACAGTCTGATGATAACACTGTGAACCTTCTGCATGAAGCATCTTTGAACCTTTCACATGATACTTTGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011032:ENSBTAT00000031604:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.490 A=NA C2=0.613
Domain overlap (PFAM):
C1:
PF034059=FA_desaturase_2=PD(9.7=14.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]