Special

DreINT0025569 @ danRer10

Intron Retention

Gene
Description
acyl-CoA synthetase medium-chain family member 3 [Source:ZFIN;Acc:ZDB-GENE-080220-22]
Coordinates
chr2:44887514-44891059:-
Coord C1 exon
chr2:44890849-44891059
Coord A exon
chr2:44887722-44890848
Coord C2 exon
chr2:44887514-44887721
Length
3127 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
CTTCCCGTATCCTGGGACAGGTA
3' ss Score
7.91
Exon sequences
Seq C1 exon
AGTGGACAGAGATCGTCTCTTCCTGCTCTGTGGTGGGTAAATGATCACGGGACAGAGGTCAGGTGGAGTTTTGAGGAGTTGGGCTTCCACTCTAGAAAACTTGCAAACGTCCTGCGTCAGGTGTGCAGTTTGGAAAGAGGGGATCGTGTGTTCCTCATCTTACCCAGAGTCCCTGAGTGGTGGCTGGTTAATGTGGCATGTATAAGAACAG
Seq A exon
GTACATGCAGGCTAGCAGTCCTGATCCCTCTGCATGTTATTTCCCTTCACCAGCATTTGGTTTCTAAGACTCCTTCCCCCTTGTTCTGTTTTCCTTTAGTTGAGGTTAAAGATTAATCTACTATTGTTTCATCATAACTCACTCTGCTGGGGGACAATGGTAGTTTGGAGCAATTGGTGATAGAAGATATTTAGGATGTTTACATAACATAGTATACTTTGTACAATAATGTACAAAAAATCTTTGCTGTTTTGAATAGTCTTACAGGTAGGCAACAGTGTTGTCAAAATACAACAACCACTAATCATGGTGTATTATATATGTCAGACCAGTAGCTGGCAATGTCACTGGCAGTGTAAAGAAATGAGTTTCAAAAGTTAGCATTTTCTGGCCCTCACCATGAACTTATTTAAATGAATGGACAAAATGCACAGAAGATTTCTGATTTTAGTCTTGTAAATGCACAATGTACAATTCCACATTTTTGACTAAGTTATAAACATAATATTAAAGGAACACTATGTAAGAATTTTTATTAAAGTCTCCAAAAACCACTGGTATGCTGACTTATTTACTTATACACTCACTGGCCATTTTATTAGGTAAACCTGACCAACTGCTTGTTAAGGCAAATTTCTAATCAGCCAATCACATGGCAGCAACTCAATGCAACTATAGGTATGTAGACGAGGTCAAGATGATCTGCTGCAGTTCACCTAATGGTGATTTAGGTGACTGAACGTGACATGGTTGTTGGTGTCAGATGGGCTGAACGGAGTATTTCAGATACTGCTGATCTGCTGGGATTTTCACACACCACCATCTCTAACATTTACAGAGAATGGTCTGAAAAAGAAAAAATATCCAGTGAGCGGCAGTTCTGTGGGTGCAAATACCTTGTTGAGGCCAGAGGAGAATGGCCAAACTGGTTTGAGCTGATAGAAAGGCAACAGTAACTCAAATAAGCACTCATTACAGCCAAGGTATGCAGAAGAGCATCTCTGAACGCAAAACACGTTGAATCTTGAGGCAGATGGGCTACAGCAGTAGAAGACCAAACCGAGTGCCACTCCTGTCAGCTAAGAACAGGAAACTGAGGCTGCAATTCACACAGGCTCACCAAAACTGGATAATAGAAGATTGGAGAAACGTTGTCTGGTCTAATGAGTCTCAATTTCTGCTGCCACATTCGGATGGTAGAGTCAGAATTTGGCATCAACAACATGAAAACATGGATCCATTCTGCCTTCTATCAGCGGTTTAAGTTGGTGCAATGGTGTGGGGGATATTTTTTTGGCACACTTTGGGTCCATTAAGAGCAATTAAGCATCGTGCCAACACCACAGCCTACCTGGGCATTGTTGCTGACCATGCCCATCTCTTTATGATCACTGTGTACTCATCTTCTGACAGCTACTTCAAGCAGGATGATGCATCTGTCATAAAGCACGGATCCTCTCAGAAGGTTTCTTGAACATGACAATGAATTCACTGTACTCAAATGGCCTCCACAGTCACCAGATCGCAATTCATAAGAGCACCTCACATCATAGATGTGCAGCCAACAAATCTGCTGCAACTGTGTGATGCTATCATGTCAATATGGACTAACATCTCTAAGGAATATTTCTAGTAACTTGTTGAATCAATGCCACAAGGATAAAGGCAGTTCTGAAGACAAAAGGGAGTCCAACCCGGTATTAGTAAGGTGTACCTAATAAAGTGGCCGGTGAGTGTATTAGCCTTCATTTTATTATGATGAGTTGAGTACTTTAGCTCATCCATGCAAATGATTACTACATGAGTCCCGTTGGATGTAATAAAGACTAAATGTCCATGATTCCACAGTCCTGGGGTCTGTTCTTCGTACGTGGATTACTCAATTAGCTGGATTTGGATATTGACGATTTGACACGATCCAGGATCGTTTCGTTCTTCAAAGCTGATCTGAGAGTTGTTGTCATAGCAACAGTTCTGCTAGGTCAAACCTGATCGGGAGCAGGTTCAATTCATATAAACAGGATTAGATCAGCTTCGTTCAAGCAAAGATAATACAGAAAGTATGTTCCGAATTCTGATATTTTCTTACAGTAGTAGTTATACACTTGGTAAAATGGTACATATTTTTTAACTATATATATATAAAGTTATAGTCATTAATAAAATAAATAAAGTTATACATATTAATAAAACGTATGCAATCTGCACCCTCGAAATAAAAGTACTAAGACTGCCACCTGGTGGTGCAAAGAGAAAACTTATTGATATGAACTTTTTAGATCGCTTTAGTACAAATTGTGTATAATAGAAATGCACAATATGTGACTTTTTTTAAAGCAATAATACATTTGTGCACTCATAAACATGTTTTGATAGTTAATATGCCAGTGATTTGATGCTTCACAAAAGTTGCAGACGCCTTTACCAATATGTAAACGCTTTTGTAAACAACCAGTTATTCTTTACACCGATTAAAAATGGCTACTATAATAAAGAAAATATTTTCTAAATGTAGAACTAAATACATTGATTTGCATTGAAATACATGATGAATACTCTTGACACATGAAAGTGTAAAGCCTGCAGCTCACAGCAAATGTGTAATGTTATTGCGTGTCATATTTAACAAGCCGTTTACTGCTAATTTGATGTAATTTTGCTCACATGGATAATTGAATATTAAGCAGATGATGTCATTACGCTGCTGTGCCGTCAGCCAATCGCTGCATTGCTGATTAGGATTTCGAGGATCGATAGATCTATCCTTCACAACACACGCAGCGATCTCAGATCAGTTTATCCAGACATTCTAATCTGATTCGCGAACTTGTTTGAAGAACCAAATTAGCCAGAGATCAGTTATCAAGATTAAAAGATCGGGGATCTGCCAAATAATCTTAGATCATTTAAGCGAGGTACGAAGAATGGACCCCTGGTATCATCAAAATACACTTGTTTGTTGTGAATGTGCATCCTCTAGTGGGCAAAATGACATCTGTTCTTTTAAAAACTAAAAATAAATAACTGCTAAATTAGAGTCATATCAATACTGTAATGTACTGTATGCAGTAGGCCGTGAGAATTCTGTTAGAATTTTATGTGAACCTCTTCCCGTATCCTGGGACAG
Seq C2 exon
GTACAGTTCTCATTCCTGGCACCTCTCAGCTCACAGCTCGAGATATGCGTCACAGACTGATAACGTCTGGGGCCAAGTGTGTGATCACAGATGAAACTCTGGCTCCACTGTTGGACACTGTAGCCTTAGACTGCCCTTCCATTTCCACCAAGCTGCTGCTGTCCCACAAGCCCATGGACGGCTGGGGCAACCTGACAGAGCTCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004880:ENSDART00000041806:2
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:
PF0050123=AMP-binding=FE(16.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.6=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
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]