BtaINT0001360 @ bosTau6
Intron Retention
Description
Bos taurus matrin 3 (MATR3), mRNA. [Source:RefSeq mRNA;Acc:NM_001102486]
Coordinates
chr7:52241842-52244915:+
Coord C1 exon
chr7:52241842-52242208
Coord A exon
chr7:52242209-52243865
Coord C2 exon
chr7:52243866-52244915
Length
1657 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
ACTTTTTCTTTTCTTTTCAGAAA
3' ss Score
11.96
Exon sequences
Seq C1 exon
CGTCGTTTCCCAGGGAATATGGAAGGTTTTGTCACTCTAGATGAGGTTGGTGATGAGGAAGATTCGGAACTTCAGAAACTTCGTAAATCGGGCATGGCATTTAAATCTGGTGACAAAAATGATGATGGTTTGGTTGAAATTAAGGTGGACAAGATCGAGGAACTTGACCAAGAAAATGAAGCAGCGTTGGAAAATGGAATTAAAAATGAGGAAAATACAGAGCCAGGTGCTGAATCTGCTGAGAATGCTGATGATCCCAACAAAGATACAAGTGAAAATGCAGATGGCCAAAGTGATGAAAACAAGGAGGACTATACAATCCCAGATGAGTATAGAATTGGACCATATCAACCCAATGTTCCTGTTG
Seq A exon
GTGAGATTTAAGGCTTTGTTGTTATCCCTCACCCTCCCCAAACTCTTACTATAAGATTTTTTTAAATTGGTCTTACATAATAAACTCTAATAGCATGAAGTTCTACGCAGAACAATTTGTAAATCTTACTTGAAGCATTCTTTTTTCCTCTTTTTGTTACCATTCCATAATATGTTCTTTTTTCTCCTCATAAAATTTTCTGAGAATTTCACATTGCTTTTTGTTTTGTTCACCGTTCTATTTCAACATTTTTAAGAGAACAATTAGGTGTGGGCCCTTAAACATCAATTAAAATACAAGCTATTAACGATGTTATGGTTTTTGCTTTGTTTTAGCGTAGGCTATATTGGACATGTCACAACTGTTAACTCATTCAAATTATATTGACAGGAAAAAAAAAGATTTGAGAACACTATTAAAATCTTCAGTTTACTGAATTTGTAAGAATGTATGTTTGTGTTCTAGGTATAGACTATGTGATACCTAAAACAGGGTTTTACTGTAAGCTGTGTTCACTCTTTTATACAAATGAAGAAGTTGCAAAGAATACTCATTGCAGCAGCCTTCCTCATTATCAGAAATTAAAGGTAAGGCTGAATCTAAAAGAGGAGAGTTCTTTTGTGAAAACTAACAAGTCACGTAAGTTTATGGACCAGTACCATCTGTGGACCCAGCACGCTTTATCCTGATAACATTCTTTATTGATGGGCCTTGAGCAGTTTGATGAACTCTGGAAGCATCTGCTAAACCTCTTTCTAGAATACACTATTAACTAAATGATAATTTAGTAATTTCTAAATTTATAGATTTAAACGTTACAAATTCTGTTGTATAATTAAGAGTTATTTGAGTATTCTCAAATGATTATTAGACTGTAATTTCTCTAATTTGGAAGATACCGGAGGCTTGAAAGTCAAGTGAAATACTATAAACCCTTTTTCAACTTTATAAAGTGCCATATCCCTTTATACTTAATGATTTTTACATTGACTTTAAATTATTATTTTATTAATAATGACACTTCAGTGAAGTTTTATGATCAAAAGGATATACAGGTAAAAGGAAAAATTAATAAAGCACAACATAATAAAGAATAACAAATTTATGTTTGGATATTTTGAAAGTTTGGTGTTTTAGTTAGTGGCTTAAGGACACCAAGTATTGAAATAGATGAGGGAAAACTTGAAAGTAGGAGTTAAAAAAGATAATACTGATTTATAATATAAAGCTGCTAGAGTATTAAGGACATTGGTTATTTTCAGTGGTAGCAGAAATTTAATAATGTCCTCTGTTTTAGAAGAAGGGGCATTGAATAAATACATGTCATTTAACTAATCTTAAGTTCTTGGGGTAGCAGCAGTTATTCTATGTGCGTATTTTGGTCTTTGTTTTCTCATCTCTGTAAGTTAGTCTTAATTGCACATTGAAGTAACTTTTTCATATTTTACTGTTTCTTTTCCCATGCCTTACTGTGGTGTCCAGTTTAGTTTTATACCTGCTTGATAAGAATAACTGGATCTTACAAATATTGACAAGGTTATAGTTAAATTAGACTCAGGTCCCTAAACTTCAGTAGAATATTTTATTTTGTAGTTAATCCATTTGTTATGTTTCACTAAGGTGACTTAATCCTTGTAACTTTTTCTTTTCTTTTCAG
Seq C2 exon
AAATTTCTGAATAAATTGGCAGAGGAACGCAGGCAGAAGAAGGAAGTTTGAGATGTGCTAGAAGCTTAATGATTTCAAAGAAAATAATGGTTCTTTGTTTTTAAATGTTAACCTTTTTTAAATACAATACTGATAGTTAGAAGAAAACTATTGTACTCTTTTGTTTTAGTGGAAAATAATAGATAATAGATGTCTGTTCATGTGTTAAGTGTTATAGCAAAAATACATATACGGTTAAGTTAATGAAGAATTGTTTTTGTTTTATCAAAATAGTAACAGACAGAAATACTTTGTAGAGACTGACTTCGTATGCTAAAGACACTTGCACCACTAAGAAAGATATGTAGAAGCATTCAAAGAAATGAAATTTAGTAGTTCCAAGCTTCAGAGATATGTCAAAACTTTTGATTCCATTCAATAAAGAACAAAACCAATTGTATTTTTATTACTTTCATCTGAAACATTCCACATTTTAATCTGAGCCTTGCAGACTTTTCATTTGGAGTTTGAAGCATTTTTGGTTTTGTTTCATTTATGGAGAACTTCACTAATGTGAGATTGGTAATTAAAATGCAGGTGCAGTTTTCTTTCAATGTCATGTTGTTGTTTAGGTAATAAGAAATATTAAGTAATTGGCTTTAGATTCTGTAATTTTTTCCCCTAAGTTCCTGCTAGATTTCGTATTCTAGAAGTCAATGTATTTTCAGTGAAATGTAAAAATATTCCCCTTCTCTTTGACCAGTATTAATTTCTTGAGATCTTATTGCTTGTCACTTGAATCCTGTAGCTGTCATACATCATCTGGTATAAGCAACATTTGATTTTTGAAGTGTGTAGACCATCTCTTTGTATTTTCAAGATGTAATTTTACATTTCTGCATTTTAAAAAAAGTTTGGCCATAATCTTAGATGCACGCTTCTAATTCATATACTTGCATATGTGACCTTTGTGAACAGAAATTTGCATGTATAATCTGTGTTTACTTGTAACTTTCTGGTTATATTATATACTGCTTATATCTGTGGATTCAAGTTTCTTAAGTGAGTACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006756:ENSBTAT00000057156:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.984 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAAACTTCGTAAATCGGGCA
R:
CTTCCTTCTTCTGCCTGCGTT
Band lengths:
342-1999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]