BtaINT0033015 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001090 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr2:26666110-26668132:+
Coord C1 exon
chr2:26666110-26666250
Coord A exon
chr2:26666251-26667905
Coord C2 exon
chr2:26667906-26668132
Length
1655 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CATTTTTAAAAATTTATTAGAAA
3' ss Score
3.29
Exon sequences
Seq C1 exon
GTGGTTTGGCGAAAACTCTGCCGCCTGGAGGCCGTGGAGCTTTCGCTTCAAATCGCCTTTCCAAGCCTGAGAACGCCGCGGGCACCCTAGAGATGCTGGTGCGATTCGGAAGGCGCAGTGGACAGGCGAAGGAAAGCGCGG
Seq A exon
GTGAGCTAAACTGGCCCATCCCGGCACAGGGACTGTTTCTGGTTCCCAAGCACGGGGGGAGAGGCGAGGGTACATTACCTTCTGAAACGGGCTGCACCAAATAAAAACAGCACTGTGGGCATCTTTGGGCTCCGTGTAAATTAGACAGTTTTGACCATGGATGGGTGGGTAGGTGGGAAGTTTACAGAAATAAGGGTAGAGAAAAGAAGTCAGAAACTTAACAGTTGACTGGTCTAGCTGGTCTGGACCTCAAGCTGCGCCGTTGCAGCTCCAAAAGTCTGGTGTTTGCTGAATTCTCTCGCACTTAAGCTTTGTTATTCGTTGAATGACTTGGAATGTATTTTGGAAATATAAGTGATCTCATTAGAATGTTGTGAACCTACTGAGTGCTCTTAGGAAAGTGTCTTAAGGAAAGTCTCATTTTATTCAAATCTAGAATGAAGGTAATGTCTCACCCTACGGCATATACTTTGATGTATCAGTGTAAAAATAATGCTGTTTAAGGTGGATTAACTCACATGACCTTTTATAAAAATTTGATTTTGTAATAGAAGTAGCTAGAACATTTAAAGAACTCTTTATTACTTTGAATGATTTTGGTTTCTTAAGTCTGTAAATTCCCAATTAATGTTCTCATGGTAACATTAGAACCTTGGGAACTTAGACTATCTTCATGTCATTGCTGCTGCTGCTGCTGCTGCTAAGTTGCTTCAGTCATGTCCGACTCTGCGACCCCATAGACGGCAGCCCACCAGGCTCCCCTGTCCCTGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAAGGTGAAAAGTGAAAGTGAAGTCGCTCAGTCCTGTCCGACTCTGAGCGACCCCATGGACTGCAGCCTACCGGGCTCCTCCGTCCATGGGGTTTTCCAGGCAAGAGTACTGGAGTGCGGTGCCATCGCCTTCTCCGTGTCATTGCTTCAGTAGCAATCAAATCCCTTGTGCCAAGTGAGAGCCAGCCATTCTCCCACCCAGTGGGCACTAGTGCATATATATGCTGTGGAAAACTTAAGAAGTACCAGCAGAGGATCATGACATGTAGGAGACAGTACTCAAGGGGCACGTATTGAAAAAACACAATTGTTCTCACATATTCACTTTCTTGTATATAAAGTACTGCACTGGGAGTTCCCTGGTGCTGCAGTGGTTAGGACTGGATGCTTTCACTGCCTGGACTGTTTGCAATCCCTGGTGGAGGAACTAAGATCCCACAAACCTCAGGGAGCAAAAAGGAAAAAAAAAAGTGCCGTGCTAAAATATTTACCTGATAGATTTAACTCTGGCAGTTGGTCCAGAAGTTTGCATCTGAGCCTCACTGCTAAATTATATCTTCATTTGGAAGATGTTGATACTGAGATTCCAAGAAGTTAAATAACTTGCCCAAGTTTACATAGTAAGGAATTGACTGAGCAAGGACTCAAATTTATGTCTTCTGATTTTAAAATCTTGTATATTTTCCACTTAATCCCAGCTGTTCTTAAGATAACAAGAATAAAATTATTCTTTGAAACAACTTCCAGATAGTATGCCAATATAGAAATGTCTATGAAAAATCACTTAAACTCTTCTTGAAAGCTTTTAACTCATTTTTAAAAATTTATTAG
Seq C2 exon
AAATGAAGAACTGTGAAGAAGATCCAGTTCTCTATCCACCTCTTCTGCCTACCAAAGTAGATCTCCGGCAGGTCACCATAATTCCACACAATGAGTGGGAAAGGATTCGAGATAGCCTAGACAGTTTGACAAGAGAAGCAGCATGCCTTCGTGCAGAAAGAAAAGCAAAGAAAGAAATGCATTTACGATCCCAAGAAGTGGTAAAACACTGGACTAATACATATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001090:ENSBTAT00000046952:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.232 A=NA C2=0.105
Domain overlap (PFAM):
C1:
NO
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:
GTGGTTTGGCGAAAACTCTGC
R:
CCACTTCTTGGGATCGTAAATGC
Band lengths:
342-1997
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]