BtaINT0104248 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003183 | NTN4
Description
Bos taurus netrin 4 (NTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001102203]
Coordinates
chr5:60379599-60381843:-
Coord C1 exon
chr5:60381775-60381843
Coord A exon
chr5:60379770-60381774
Coord C2 exon
chr5:60379599-60379769
Length
2005 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TTGGAATTGTGTTCCTACAGTGC
3' ss Score
6.09
Exon sequences
Seq C1 exon
GTAAATGTGAATGTAAGGAACAGGTGTTAGGAAACTCCAAGGCATTCTGTGGAATGAAATACTCATATG
Seq A exon
GTGAGTCTGAAGTCCATGAGTGCTTCCAAGGATCTATTCAAACTACCTGTACAAAGAGTTTTGAAGGAAATGAGTGGCCTGGTTTATGACATTCTCAGTAAATCAAAGCATTAGTCTTATGTAACAGTAGTAAATACAGTATTCTGGTCTTGACCTAGATTTTCCTAATAGAGATGGTTTTGAATGTCTTAGTGAGAGTAGGAGGCTTTTAGAGCAAAAGCAAGGTTATCCTAGTATGTGGAAAAGAGGCAGACAACAACAACAACAAAATCTTGACATATAATCCTTTCCTATGAATGATTCTTATTTTATTAATCTAAAAGGAAAGTCTCTAGCCATTTAAATGACTCCTTGGCCAGTAGTACTACTAAGTAGAAATCAGTTTAAAGCAGTGTATTCACAGTGATTAAAAGCTCAGGCTTTGGATTCAGACCTTATGTGTGTTTTATTTCTGGTTTATTGGGTGGGTACCTTAACATCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGGCTGCCATCTATGGGGTTGCACAGAGTTGGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCAGCAGCAGCTTAACATCTCCAAACTTCTTCATCTGTAAAACAGGGATGATGCCATCTTCCCCATGAAATGAGATTTTTGAAAACCACACAGCACATTTCCTTGCACATACTAGATGCTCAGTAAGTAGTAGGAGGGAAGGAGAAATATACTGGAAAGGCATTGAGACTAGCTCTCTGCCTGACTCTCTTCCCTGCCATCTCTGTCTACTCCTCTACCTTTCAAATACCCAGAAGATAAAGTGTATGGACAAAGGAAAATGTCATTGCCCTAAGTAAAGACTGTTACTATTTTTAAATTCTAAATGGCTTTATTCTTAAGTATAGGTAGCTCAGATGGTAAAGAATAGGCCCTCTATGCCAGAGACCCTGGTTCAATCTCGGGGTTGGGAAGATCCCCTGGAGAAGGAAAAGGCAACCTGCTCCAGTATTCTTGCCTGGAGAATTCCATGCATAAAGGAGCCTGGTGGGCTACAGTTCCTACAGTCCATGGGGTTGCAAAGAATTGGACATGATTGAGCAACTAACACTTTCACTTTCAATATATTAAAGATGCCTTATCTTGCTGCCATATCATTGACTAGTGTCTGAGTCTTTTATTATTCCATAACTTATACAGCCCAAAATATACATAATTCCTATCCACATCCACTTCATAAATGGAAGAGTATAATAGAATCATGAAACTGGAGCTCTGCCATCACACAGGACAGCTTCCTAATCCCAGTCAGCTTGAATTTTACACCAGGGAAGAAAAGTAACCAATAATATTTAATCTCTTTAGACTATGTAAAATATGTCCTGGCAATAACGTTTTGCTCCTTGTCATAACATTACACAAAGCCAGCCATAGAGTATAATATAGTCAGAATCTAAATAAAAGCCAGGATAACAATTCTACTTCCTGTGCATCTTTTTTCTTTTTAGATTTGATAGCTGAATGTGCTTAAGATTTATTTGCAGTAGACAAATGGTTGATATTCTCTTAACATAATGATATGGAAAGAAGTAACATTTGAAAATGTCTAAGAAGGAAGAGGATAGTTAATATAGATAGATTGGATGAAGTTAGTGTAAAATCAATGAGCCTAATGATTTTCTTTTATTGAGATATATAGTTAATATATAATATTATATGTTTCAGGAGTATAACTAGTGATTCACAATTTTAAAGGTTATATTCCATTTACAGTTATTATAAAATATTGGCTATATTCCCTGTGTTGTAAATACATCCTTGTAACTTGTTTATTTTATACATAGAAATGTGTACCTCTTAATCCCTAATGATTTTTAAAGCATATTTCCACATTATAATCACTAGTTCACTTTTCCATTATACTCTGAAATGCATATCTAAGTTGTTCAAAGTTCAAAGAGTAGTATGAAATTCTATTCATTTTTACTTTTGGAATTGTGTTCCTACAG
Seq C2 exon
TGCTAAAAATAAAGATCTTATCGGCTCATGATAAAGGATCTCATGCTGAGGTCAACGTGAAGATTAAAAAAGTCTTAAAATCCACCAAACTGAAAATTTTACGAGGAAAGCGAACACTGTATCCAGAATCATGGACTAACAGAGGCTGCACTTGTCCAATCCTCAATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003183:ENSBTAT00000004136:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(9.3=41.7)
A:
NA
C2:
PF0175916=NTR=FE(52.8=100)
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:
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]