DreINT0108112 @ danRer10
Intron Retention
Gene
ENSDARG00000028900 | odf2a
Description
outer dense fiber of sperm tails 2a [Source:ZFIN;Acc:ZDB-GENE-091117-46]
Coordinates
chr21:13040441-13042576:+
Coord C1 exon
chr21:13040441-13040626
Coord A exon
chr21:13040627-13042466
Coord C2 exon
chr21:13042467-13042576
Length
1840 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
AAAGTGTATATTTTTTACAGGAA
3' ss Score
6.8
Exon sequences
Seq C1 exon
AATCTGGAGCGATCCCTCAGCCAGCAGCAGGGGGAGATGGACCACCTGCAGAACCAGCTGCGAGACCTCAGGCAGCAGGCGGAGGCTGATAAGGAGGCCCTAAAGAAAGCCACGCGGGCACAGAAACTGCGGGCACAGCGCAGTGAAGACACTGTCGGACAGCTCAGTGGCCAGCTCTTAGAGATA
Seq A exon
GTAAGTGAACTAGGCTTAAAGTAACACTACACTTTTTTTTCTTGAGAAATAGTCACCTAGAGTTAAACCATTAAGTTTTATATTTTTTTAATCCATTCAGCCGATATCAGGGTCTGGTGAGAGTACTTTTAGCATACCCTAGCATAAATCGTTGAATCGGATTAGACCATTAACGTCCTGCTCAAAATTCTGAAAAAGAGTTTTGATAATTGTCCTATTTAAAATTGATTCTAGGGACTTTACTCATTCCAAAATAAATGTCAGGAAACTTTTCTGTTGGATCAAGGCTGCAGCAGGCGCAACGATATTATGCAACACTGTTACTTGGCTTGGGACTATTTTCAGGTGCTGCATATATATAATTCAATTCAATGATTTATACTAAGCTACAAGTGCTCCCGCCAGACCTAATGTTCAGCTGAATGGATTAATAAATGGTAAAACTCAACTGTTTAGCTGTAGGGGACTTAAAATGGGCCCATTTTTTAAGTGTTCCTTTAAACAATACTTCAGGTTTTGTGTGTTTAGTTTTTATTATGCTGCTGAAAATAATAATAATATTAATTTATAAGAATAAGAAATGAAGTTTTGTGCTTTAACTTTTATGCTTGTACATTGATAAATATGATAAATATGACAATATAAAGCAAAACAGGCAGTAGGTGGTGACAAGTCCCTTTTCTTAACCCTTTGATTGCCCTTTTACCAAACGGTTGACCATGTTTTTACCTTTTTAAATAATATCTGTTAAAGTCATTTAGAGAATGACTGTTATAAATAAAGGCTTACACACAGCATTGTTGGTTTACAAGAAAAATCAAACAAACATAATCCTGGTCCAATAAAAAGGACAAATTTGGGTAACAATAATATAGGACAAAACAAAAGTTATACAAATAAAAGGGTTTACTCATGGGCAACACAGTAACCATAAACATTTTCCAAAAATCCAAAAGTCCAAAATTTTTTCTCCTTTCCCAAGCTTTTCAAATCTAATGGCAATTTCATTCATTATTTTATTATTTTTTATTTTTTTTCTTCGACTTAGTCCCTTATTTAACTGAGGTCGCCACAGCAGAATGAACCAGCAACTATTCCGGCATATGTTTTTACGCAGCAGATGCCTTTCCAGCTGCAACCCAGTACTAAAAAACACCCATACACTCATTCACGCACACAAACACGCACACAAACACGCACACAAACACACACACTCGTACACTACGCCCAATTTAGTTCACTCATTTCACCCATAGCGCATGTCTTTGGACTGTGGGGAAAACCGGATCACCCGGAGGAAACCCACACCAAACTCCACACAGAAACGCCAACTGGCCCAGCCGGGACTCGAATTTTCTTGCTGTGAGGTGATAAAGATAACCACTGAGCCACCGTGCCGCTTCTAATGGCAGTTTGTGAGATATAAATATCATTCATTCATTTTCTTTTTGGCTTAGTCCCTTTATTAATTTGGGGTCGCCACAGCGGAATGAACCGCCAATTTATCCAGCATATGTTTTACACAGCAGATACCCGTCCAGCCGCAACCCATCATTGGGAAACAGCCACACACACTCATTCACACACACATACATACACTACGGACAATTTAGCCTACCCAATTCACCTGTACCGCAAGTCTTTGGACTTGTGGGGGAAACCGGAGCAGGTGGAGTAAACCCACGCAAACCTGGGTACAGAGCATGCAAACGCCACACAGAAATGTCAACTGCCCCAGCCGAGGTTCCAACCAGCGACCTTCTTGCTGTGAGGCGACAGCACTACCTACTGCACCACCGAGTTGCCCATCTAAATATTTAAAAGTGTATATTTTTTACAG
Seq C2 exon
GAAAAACAATTGGCAGAGGCTGTGACAGCTGCAGAAAACTGGAGCAGTCGCCACGCAAAAGAGATGAAGGACAAAGGACAGCTTGAGGTGGAGATCGCACTGTTGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028900:ENSDART00000081426:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.839 A=NA C2=0.351
Domain overlap (PFAM):
C1:
PF115593=ADIP=FE(66.3=100)
A:
NA
C2:
PF115593=ADIP=PD(2.2=5.4),PF0031217=Ribosomal_S15=PU(52.8=75.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCTGGAGCGATCCCTCAGC
R:
TGTTCAACAGTGCGATCTCCA
Band lengths:
295-2135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]