GgaINT1022506 @ galGal4
Intron Retention
Gene
ENSGALG00000008053 | PRDM11
Description
PR domain containing 11 [Source:HGNC Symbol;Acc:HGNC:13996]
Coordinates
chr5:21601922-21605585:+
Coord C1 exon
chr5:21601922-21602572
Coord A exon
chr5:21602573-21603420
Coord C2 exon
chr5:21603421-21605585
Length
848 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TCTCTTTTTTTTTTTTCCAGCTT
3' ss Score
10.46
Exon sequences
Seq C1 exon
GAGACAAAAAATTACAGAAGGAAAAGTCAGAAAAGAATGCAGATAATCAAGAGGACACAAGGGCTCCACTCCACTTCACCACATTAAAGCAAGGGAAGAGCCCCTACAAACGCAGCTATGACGAGGGGGAGTCCCACCCCCAAACAAAGAAAAAAAAGATTGACCTCATCTTCAAAGATGTCCTGGAGGCCTCTTTGGAGTCTGCCAAATTTGAAGAGAAACAGTTAGCAACAAGTACACCGCTTTCCACAAGAGCAACATCTAAATACCAGGCAGAAGAGATCTTTGAGAGGTGCAGTAGTGCCATGCAGCATGGCTCCCTAAATCTCAGCAGAAACAGAAGCGAAGAGGAGTGGAAGGCCCCTCATGGTTCCTCTTTCAGTTCTGCCAAAGAAGTGGGAGTCCTTGAAGACGAGGAAGAAGAGCCTCTGTCTCTGAAAGCAGACAGCCCTACCGAGCTGTCACTGGCTTCTGCAGAAGGCAACTCCCATGAAATTCCTACCACCTCCTTCTGCCCCAATTGCATCCGGTTGAAGAAGAAAATCAGAGAGCTACAGGCTGAGTTAGACATGCTGAGATCTGGGAAGTTACCTGAGCCACCTGTGCTACCACCCCAGGTACCTGAGCTCCAAGAGTTCTCAGACCCCACAG
Seq A exon
GTAAGCCTTGCCGAGTATCAGCCTTCTCCAAACCCTGCCTAAGGAAAGTATTGAGATGCCTGTGTGCAGTGTACCCATCTAAAGCATTTTGCTCTGAGTATTCAGGTGAACAAGTGTTTCCATGGAAGGTTCATTGTCAGGTTTTTTGAATGAATGGGACAGCTGACGTTGTGGGCACTGTGGAAGACTGGGAAGTACGGAAAAGACTCTGTACGACAACTTGCTCTATTTGTTGCCGTTGTAATCAATCATGCACTGTCAATAAAGAAGACATTCCATTGCAGACAGTTTGTTTGCTGTATTTTTGATGCATTCTTTTTCAGCGGAATCCCGTCCACAGTGTCTTACATGCTACCAGGAAACAGTGCTTGAAAGTCTGAATTAACTCAGTGGTTAACACTGGAATGTGTGCTCTTTGTGTGTGAAATTATGTCCTGCTGTGTTCCTCATTGGAAGGCACACTGTCTTCTCCACTGCCTTAACACAAACATGTGTCCCTTTCTGAAGATGTTTCATTTCTTCCAGGAACATGCTATTGAGCAGCCTGAGCCTTCACCAAAGGAACATTTGGGTCACACCATGCATTGTGCAAATAGTCAGGATGTAATATCATTTCTTTCTGTCTGTTGTGGCATGTTGGAGACTTAAGTTCATAAGGAGAAACATCGATTTATGTTTCCTTCAAAGCTGTTATTCAAATTCTAGCCAACGTGGTTGTGGACAGGGTGTGGCCAGCTCATAGGCAGCATTCTACCATCACTTGTAGGATGCTTCTCTAACTCAGAGTCTTGGTAAATGCCTTATTATACCTTTTTTTCCCCCTTCTTCTCTCTTTTTTTTTTTTCCAG
Seq C2 exon
CTTCAGAGAGTATCATCTCTGTTCCCACCATCATGGAGGATGACGATCAGGAGGTGGATTCTGCTGATGAATCAGTTTCCAATGAAATGATTGCTGCTACAGATGAGCCTTCCAAGATGTCTTCTGCAACGGGACGGAGAATACGGAGGTTTAAGCAAGAGTGGCTTAAGAAGTTTTGGTTTCTGCGGTACTCCCCGACATTGAATGAAATGTGGTGCCATGTCTGTAGGCAATACACAGTGCAATCCTCTCGGACTTCAGCTTTCATCATTGGCTCAAAGCAGTTCAAGATACACACAATAAAACTTCATAGCCAGAGCAACCTCCACAAGAAGTGCCTGCAGCTTTACAAGCTCAGAATGCACCCAGAGAAGACAGAAGAGATGTGTCGAAATATGACTTTACTCTTCAATACAGCCTACCACTTGGCACTGGAGGGCAGGCCCTACTATGACTTTCGGCCTCTGGCAGAGCTATTGAGAAAGTGTGAACTCAAGGTGGTGGATCAATACATGAATGAAGGAGACTGCCAAATCTTAATCCACCATATTGCCCGGGCTCTTCGGGAGGACCTTGTTGAACGCATCCGACAGTCACCCTTCCTCAGCATCATTCTGGATGGGCAGAGTGATGATGTGCTTGCTGACACAGTTGCAGTGTATGTACAGTACACAAGCAGTGATGGGCCTCCAGCAACTGAATTCCTGTCTCTTCAGGAACTGGGTTTTTCTACAACAGACAGTTACCTCCAAGCATTAGACAGGGCCTTTTCCAGCCTGGGAATTCGATTGCAGGATGAGAAGCCGACTATTGGCTTGGGAGTTGATGGTGCTAACATTACCGCCAGCCTGAGAGCAAACTTGTTCATGACAATCAGAAAGACTTTGCCATGGCTTCTCTGCTTGCCCTTTATGGTACACAGACCCCATTTGGAGATTTTGGATGCAATCAGTGGGAAAGAACTGCCATGCCTGGAGGAGCTGGAAAACAATCTGAAGCAGCTGCTCAGTTTCTATCGTTATTCCCCCCGACTTATGTGTGAGTTGAGGGTCACTGCTTCCACCCTGTGTGAGGAGACTGAGTTCTTGGGTGACATTCGAGCAGTGAAGTGGATCATTGGGGAGCAAAATGTGCTCAATGCTCTCATCAAGGATTACCTTGAGGTTGTGGCCCATCTCAAAGATGTCAGTGGCCAGACCCAAAGGGCAGATGCTTCTGCCATTGCCTTGGCCCTCCTGCAGTTCTTGATGGACTACCAGTCAATTAAACTTATCTACTTCCTGCTGGATGTGATTGCTGTACTTTCACGCCTTGCCTACGTCTTCCAAGGGGAGTACCTTCTTGTGTCGCAAGTGGATGATAAAATTGAGGAAGCTATTCAGGAGATCAGTCGGCTAGCAGACTCACCAGGGGAGTACCTTCAGGAATTTGAGGAAAACTTCCGTGAAAGCTTTAATGGCATTGCTGTGAAAAACCTACGGGTGGCTGAAGCCAAATTCCAGTCAATCAGAGAAAAGATCTGCCAGAAGACCCAGGTGATTCTAGCCCAAAGGTTCGATTCCCGTAGCCGGACATTTGTGAAAGCCTGTCAGGTATTTGACCTTGCAGCTTGGCCCAGAAGCACTGATGAGCTCATGAGCTATGGGAAGGAGGATATGGTACAAATATTTGAACACCTGGAGACGGTCCCATCATTTTCCAGAGAGGTTTGCAGAGAGGGAATGGACACCCAAGGGAGTTTGCTGATGGAGTGGCGAGAACTCAAGGTGGATTATTATACCAAAAATGGTTTTAAAGACTTACTCAGTCACATTTGTAAATACAAACAGAGATTCCCTCTCTTAAATAAAATAGTTCAGATCCTCAAAGTCCTTCCCACCTCATCGGCCTGCTGTGAGAAGGGGCGCAATGCCCTGCAGAGAGTGCGCAAAAATAACCGCTCTCGGCTCACACTGGAGCAGCTCAGTGACCTGTTGACGATTGCTGTCAATGGGCCCCCCATTGCCAACTTTGATTGCAAGCGGGCACTAGATAGTTGGTTCGAGGAAAAGTCGGGCAATAGTTATGCACTGTCAGCTGAAATGCTGAGCAGGATGTCATCTCTTGATCAGAAGCCGATGTTGCAGAGTGTGGACCATGGCTCTGAGTTTTACCCCGATATTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008053:ENSGALT00000013067:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.705 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCCTCATGGTTCCTCTTTC
R:
TCCACCTCCTGATCGTCATCC
Band lengths:
350-1198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]