BtaINT0029712 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023776 | C9orf116
Description
chromosome 9 open reading frame 116 [Source:HGNC Symbol;Acc:HGNC:28435]
Coordinates
chr11:106452557-106455940:+
Coord C1 exon
chr11:106452557-106452635
Coord A exon
chr11:106452636-106455537
Coord C2 exon
chr11:106455538-106455940
Length
2902 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
TGTCCCCTTCTCACTTCCAGAAG
3' ss Score
10.81
Exon sequences
Seq C1 exon
GACCAAGGAGCCCCCCTCAGTGTACAGGACCAGTAACCAAGCTTATGGTAGCAGAGCCCCCACTGTGCACGAGATGCCG
Seq A exon
GTAAGGAGGAAGCAAGGAAAGGCTCTGGAGGGGGGTGCGTGCGTGTGTGTCCGGAGTTCCAACATCACAAATGGAAAGGGATCACCCCACATCTTTTTAGAACAGGACAGGGTAGAAAAAATGAGTGAATGAATTTAGCAAACACGTTTTAAAGGCTGGGAAAGGGGCATGGTGGGCTTGCTTGCATGTATGTGCTTGCTCAGTTGTGTCCAGCTCTTTGGGACCCCATTGACTGTAGCCTGCCAGGCTCTTCTGTCCTTGGAATTTTGCTTGCAGGAATATCCTGGAGCGGGTTGTCATCTCCTCCTCCAGGGGATCTTTCCAACCCAGAGATCCAACCCGGGTCTTTTGTGTCCCCTGCATTGGTTGGTGGCTTCTTTACCATCTAAGCCAATGGGGAAGCCTGTAGACTGGTTTACAACATCCCAATGCACTGGCCCCATTCATTCATACGACGAGCCAGCTCTTATAGGCAGTAGATTTTGAGGCAGATAAATGAAGGACTACTTTCATTTTGGAGTAATACCTAACCTGTGACCCTAAGAGGCAGCACTGGTGGTGAAAGCTTAGGTTCCAAAAGGACTGGGGTCCGTGCACCTTTGGGGAAGCTGAGTCCTTTTTGATTGACTTCACATGGCAGGGGGCCTCCTCGAGTCCTCCGATGGCCCTGCTGCGTCTAGGAGAAGGGCCAGTGGGCTGGTGTGAGCCACCCATGGGTACCCCAGACAGTGGACCACCCGCCTGGGGGGCCACGTTGGTTTTCTTCCAAAATATCCCTCATTTTTAAAGCAAATCGTGGTTTATGTTTTTGACTTAAACTCTGCTGGATCCTTGTTGCTGCATGGGCTTTTCTCTAGCTGGGGTGAGCGCGGGCTGCTCAGGGCGGTGGCCCCTCGACGCGGAGCACAGGCTCTAGGCGCACGGGCTTCAGCAGTTGCGGCCCCGGACTCTAGACACAGGCTCAGTAGTTGTGGATCATGGGCTCAATTGCTCTGAGGTGTGTGGGGTCTTTCTGGACCAGAGAGCGAACCCATATCTCCTGCACTGGCAGGCGGGTTCTCTACCACTGAGCCCCTAGATACTCCTCATTTAAAAAGAGCTGGATAATCGCTTCTTTACTTACTTCGCGTGAGGGAGTACAGCTCTTAACAAAAAAGAGATTGTTTACCTACAAAGTTTCCAGAGCACTAAAGGTCATGCTCCCAAAGCCAAGGTATCAGGTGTTTCCATGCAGAGGGCCCCCATGCTCACTAACACAGGCCCGGACGTTTTGCTTTCGTGCACAGGTCTTACGAGGCGGAGGCAGTGGGGCCTGAAGCACGGGCTTCTCATGAGGCAGGTTTAGCAGGAGCTTTTCTGCTTATTGTCGACCTGCTCTATCAGGAGCCTGGTTTCCAGTTTCTGGCCTGAGTGTGGCTGCTGGGCTCATTGAGCAGGACTGTTTCCTTCCCATGTGGGAACAGAAAATAAAAATGCGTGTTTTGCACTTTAAAACATAGACTGAAGGGAACTATTCTTCCTGACACCGTAATGGTGGATTCAGGTCGTTCCTTATTCAGTTGTTACAACCCAGAACGTACAGCTCGAAAAGTGGACCTGAGCGTGTGGTGTGGACTTGGTTAATGAGAACCCGCCCACACTGGCTCAGTCACTCTACACGCTGCGCTGTGAGACACACACACCACGGCAGCTGTGTGCTGCAGGGAGGCAAGTGGGAGCTGCTGCTCTGAAAAATAAGTGCCCGGGGATGCCCTGGAGGCCGAGTGGTTAGGACTCCATGATTCCATCGCAGGGGTCGAAAATTCGATCCCTGGTCACGGAACTGAGGTCCAGCAAGCTGCACAGCATGGCCCACAAACCAGCAAAGCAGAACAAAACACGAAACACCAAAAACAAACACACACACACACCAGGCCAACAAAACATCTAAAAAACCTTCCAGAATACACCGAAGGCCATTTTTCTTTGCATTTGCTTCCTGTCGAGGAGACAGAATATCAGGGGGGCTTCTTGACACAGGGGCACTCTAGAATGGGCCACCTGTCCCGCAGTGGTCCAGGCCCCTTCCGTCAGAGGCGCCCAGGTCACCTGGTGACGCTGGGTTGCTGAAATGACCACTGCCCCTAGGTGCCCGCACACACCGGCAGCACCCCCGTGTCCAAACGGCAACCCCGCCCCGCAAGGGCAGCCCCTCCTGAGCCCCCTCTGCAGGTGCGCTGGGGCCCTCAGAATGGTTCTAAGGTTCTGCAAAAGATTCTGATTCCCTGTCAAGGCTGAAACCTACTCAGGCCACTTCTCTTCCGTAGAAAGCTCAGGTTCAGAGAGGCGCATTGACTTGCCCTGGCTGCACAGTCGGCAGAAGCAGAGCTGGGAATGGCTTCGGCCTGACACCCTGTAGCCAGACCCGGGATGGCACTGCCTCGCCCGGCTGTTACAGCCCCCATAGCGGCGGAGGGAGGCGCCATTCGTCATGACTCCCTGGCGTTAGGCATAAACCGGGGCGGTGCTGGTGGTTCAGTCGCCCAGTCATGTCCGACTCTTGTGACCCATGGACTGCAGCCCACCAGGCTCCTCTGTCCGTGGGATCCTCCAGGCAAGAACACTGGAGTGAGTCTCCATTCCCTCCTCCAGGGGATCCTCCCGACCCAGGGGTCGAACCTGGGTCTCCTTCATCGCAGGTACATTCTTTACCAACCGAGTCACCAGGAAAGTCCAGGGGCAAACGAGGCCATCCTGCAAACCTGCTCCCCCGCCCCGCCCCGCCCCGCCCCGGCCTCTCTGTTTTCTAGTTTTAGGAACAGTGTTTTCTCCCAAATCCTTATTTTCCTTTCACAGGCGCCTGATGACCAATTGCTCGAGTGCCACCACGTGCCACTAACCCGTGTCCCCTTCTCACTTCCAG
Seq C2 exon
AAGGTGTTTTATCCAAATTCGTATAAGTTTTCTAGACAAGTTGCAGTGGGCGGAATGTTCCAGAACAACACGCTCAATGTCTACATGGAGAAGAGCATTGTGACAGGTCCTGACAACTACATCACCTCCTATGACCGGCTCAACTTCCACCCCAGCTACAGGGTCTGCAGGCCGTCCATCTGTGACTGAGGGGCCTCCCGGCTCCTCTGGACGGCTGTCCACCCTAGTCCTCGATGGTTCGCCCAGGCGTAAAGGGACGCACTTGGCCACTTTTCCCGAAAACACTTTTCCTTTCTAGATAAGCAGGCAGACGGGGCGGCGATGCTCTGCTTTCTCTGTTTTACGCCTGAGACGAAAAAGAGCTGATGGCTTGACTTTCCATTAAAACTCTTGCCACGGCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023776:ENSBTAT00000032601:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF148921=DUF4490=FE(24.3=100)
A:
NA
C2:
PF148921=DUF4490=PD(29.9=50.8)
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]
SPECIAL DATASETS
- Pre-implantation embryo development