DreINT0048962 @ danRer10
Intron Retention
Gene
ENSDARG00000009014 | col11a1b
Description
collagen, type XI, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-070912-607]
Coordinates
chr2:15726462-15729041:-
Coord C1 exon
chr2:15728973-15729041
Coord A exon
chr2:15726696-15728972
Coord C2 exon
chr2:15726462-15726695
Length
2277 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
TGTGTGTTTCTGTTTTTCAGTTG
3' ss Score
11.16
Exon sequences
Seq C1 exon
GTTAGAATATCAAACTGGCCAAAGGAGTCCCCAGGATCTTGGTTTAGTGAATTCAAGCGAGGAAAAATC
Seq A exon
GTAAGTCCCCATTTTTCTCTTTTGTTATAAAAGTTCAGCAGTTTGACTGTGAATGTCTCTATTGTTTGAGGAGTGATAGTAGTTTAGGTCAGAACCTATCCACAACCATTCAGTGACTAGTATGCTTCCAGTAACTAATAAGAATTAGGATGAGCTTTATTTGCCAAGTGTGCGTTAACTAGCAAGGAATTTTTTTGTGGTTTAAAGGAGCTCAGGGTAAATATATTCATATGAACACAAGTGGAAGGAAAGACATTTAATAAGTGGAAAATAAAGTAAACAATAAAACAAACTATAAAAATAAGAACTTTGGACACATCTTTGTATTCAAATATGTAAATGCAGCACTCAGGAATGTTTGTTTTTTAAGCACCTTCTCTGCTAATTGCTGTCAAGTAAAACTGTTATTAAACCAACTTACTGTTAACAGAAGCTTGTGATGCTTGTGCTGCCTCTGAATTGTTCTTATTGGTCTTTTAACTTTACATTGTGTTTTACAAAAGGTGAGTCACTGCAAAAGATGCAAGCATAACGGCCACTCATGTTTGCCAAGTGCATGCTCATATTGAAAAACAATGGAAAACTAGAGCATTGTAATGGAAAAAAAAATGTTCTGTTTGAATGACCTCTTAAAGATGTTTAAATGTCAAGAGCAGATATCTTCTGTTTACATGCAACTTTGATTATTCTGATTATTTGCTAAGATATGTGGTTGTTTTGATCCTTCTTTTAATTTTTATAAATTTAACTGGTCAAGATTTGAAATCCACTAACATCAATTGCAAAACACATTTCTGTAGACGGGTGTTCATTCAGCATGATGATTATTGCAATTTTTGCACTGAACTGGCTTCTTTGCACCATGTCTGAATGAATCAACAGAGCCATTAGTTCATGACGTTTTGTCAACAACAACACATCTGTGCACGTCGTCTAAATGCACTAGGTAATAATGCAATAATAATAATAAACTGTTCACATGCCTTTTTTATTTGATTAATTCAATTGTGACTACATTTATGAGCTTCAGTTTCCTTTAGTCTGATGGATATAGCAAAAAATGACAATGCATGTGGTAAATACAAATGATATATGCTTAATTTTATGAAAAGCGATGGATTATTGAGGATTAATTGTACAAATAAGGTGCAAATAAGCATAGAACCTCCATAATCAACATCTTTGTTGATCATGAAACAACAATCTAATCATCCAAACAGATTTAAGGTACAAGTTTACAGTTTAAGCTTACATTCAGGGCTTCTATAATTGTCATTCACTAGTCATTTCCCTCTAGGGGTTCCAGCAGTTTGTAACTGTTTTTGAGTCTCATTGGTACATTTTAGTATGATTTGCTCATTCCCCAGAGGTTGTTAGGTTTGAGGGATGACTCCTTTTAAAAATCTGACTTTTTTGTCTGAATAAAATTGCCGGAATTTGTATGAATTAGACACTTTTTAGACAATACAAAACATTGTTGTGTTTCCTCATGGTATCGGGCTGGAGTAATCTACAGTTAGAGGTGGGTTTTGGGGAAGGAATGAGGTTTGGATGAGATTTAACAACAGGTAATGTATAATGTTCCATGATCAATAAAATATGCAGACCCTGGAACTTAAAATTAGGAAATGACAATTTATCATGGGTAACAATCCATTAAGAATCATTTAAAGATAATCAAATAGTTAAGTGGTCCAGCAAGCTGACCAGGGTGTCACTAGCCAATCTAGAGGCCATGTACACCAGGCAGCTAAAGACAATTACAAATTCAATTTTAAGTGACTCTGCTCATCCTCTACACTCAGCTCCAGTTTCAGCTCATTCCTTCTAGTCGCATGTTTCTAGTATCAAGCTAAATGATACCAAAAATAGTTTCATACCAGCAACCAAAGACTAAAGCAGAGGTATTTCGGTGACTTGTATATTTTAGATTGTTTAAACATTTATTGGGGGGAGGGGGGCACTTGAAGTGATTTTTATTTATTCTTTATAAGTGTTTTTATGTCTTTATGTCCATTTGTCGTTGTTACTGTGTGAGCTTTTTTGTGTAGCACTGTTGAGATGAGGACTATTGACTGCAAACCAAATCTACCTTCAGGAATAAATAAAGTAACCTAAACTATTGGTTTCTTAAACATATTTTAAAAGTTAAACTTTTTTGAGTAAATAAATCATAACTGCACAATTCCTATTGATTCACATGTTGACAGTTGGTTTCAACACTGACAGTGCTTCTTTGGTCCAGATGTGTGATCTGTGTGTGTTTCTGTTTTTCAG
Seq C2 exon
TTGTCTTATGTGGATGTTGAGGAGAGCTCCATAAACTCAGTCCAGATGACGTTCCTCAAGCTGCTGAGCTCTTCTGCCCGGCAGAACTTCACATACATATGCCATCAGTCTGTGGCCTGGTACGACGCCAAGGCTGACAACTATGACAAGGCTCTGCGCTTCCTGGGCTCCAATGATGAGGAAATGTCCTATGACAACAACCCCTTCATCAAGGCTCTTTCAGACGGCTGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009014:ENSDART00000049589:65
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(10.4=100)
A:
NA
C2:
PF0141013=COLFI=FE(36.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]