DreINT0088104 @ danRer10
Intron Retention
Gene
ENSDARG00000101209 | lamb1a
Description
laminin, beta 1a [Source:ZFIN;Acc:ZDB-GENE-021226-1]
Coordinates
chr25:31199727-31202673:-
Coord C1 exon
chr25:31202610-31202673
Coord A exon
chr25:31199930-31202609
Coord C2 exon
chr25:31199727-31199929
Length
2680 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAAG
5' ss Score
1.6
3' ss Seq
CACTTTTGCATATTCTCTAGACA
3' ss Score
6.29
Exon sequences
Seq C1 exon
GTCATTTTTAGGGTTTTGGATCCTGCCTTCAGGATTGAGGATCCCTACAGCCCCAGAATTCAAA
Seq A exon
GTAAAGGCATTAAAAAAGCAATCGCATTTTCTTTGAAATCATTTTAATGTTAATTTCTCATGTTGTATCTGCACATTAGCATACATGCACAACAGAGTTGTGGCTTTTTTATCTCCTCATCAACACACATTTTTTTTCTGTATTATAAATCAGAGGAAAATATTTCATTTAAAAATACTTGGAATTAGAAAAGGTAAACTGCACACACTTGATTGTGTAATATGTGGACGTGCCTCACAGCACAAAGCATTACTTAACCTTTAAATATGCATGCTTAATCAGTCATCGATAAGTTCAATTGTTTAAAAGGTTATTGATAATCAATAGATCAAGTAATCGCTACCATCCCTAAATAAAATAAAGGATATTTCACCCTAAATTTACCATACATTAAAAGGAGAGTTCATCCAAAACTGAAAATTCTGTCACCTTTAACTCACTTTTTACTTGTTCCAAATTTGTTTTCATTTTTTTATGAAGGTGAACAATACTATACAATAACTTGTAGGATAGGGCGAGGCAGTGGCGCAGCAGGTAGTGCTATCACCTCACAGCAAGAAGGTCGCTGGGTTGCTGGTTCGAATCTTGGCTCAGTTTGCGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCCTTCACGTGGGTTTCCTTCGGGTGCTCCGGTTTCCCCCACAGTCCAAAGACATACGGTACAGGTGAATTGGGTAGGCTAAATTGTCCGTAGTGTATGAGTGAGTGTGTGAATGTGTGTGTGGATGTTTCCCAGAGATGGGTTGCGGCTAGAAGGGCATCCGCTGTGTAAAAACTTGCTGGATAAGTTGGCGGTTCATTCCGCTGTGGCGACCCCGGATTAATAAAGGGACTAAGCCAACAAGAAAATGAATGAATGAATGAATGAACTTGTAGGATAACGTCTTTGATTGTTGAAAACTTAAACAGCAAATGCTGAATAATGATTAAGATGGTTCTTTTGTTTATTATTTTTTTATTCATATTGTCAGACAGCTAAAACAGGTCACAAAATGTGATAAATCAGCTGGACAAAGCGATTGGCATGCTGAAAATCCTATCAAACTGACAGATATAAAGATTTGACATTTATCGTGATAATTATCAATATTGACTGATATGGAAAACATTATCATGATCATTTTTTTGCCATGTCACCCAGCCCTACTTAGAATCAAATTACATTACTGTTTTTTTTTTTTTTTTTTTTTGATTGCGGGATTACAAAACCCAATGGCAGTAAATTATTAATAATATACTCGTTTTACAAATTTCTTTTTTCCATGGCTATAGGTTCATGTACATTCATTTCTGAAATTTAGGATATATAAATAATAAAATCCAAGTTATATCAAAAAGTAGTCTAAGGCCGTACTCACACTAGGTACAGTTGCCTCGAACCTAGCCAAAGCACGCTTGTCCCCCCTCCCGTCTCCCCCGACGGCAAGCACTCAAACCATATCGGGCCTCGGCACGCTTACGTCATTGCTGCTGCGCTGTTCAGTGAGAAGCGCTCTCTATGGCAAGCCTTTTTAGCATTTAAATCTTTGTTCTGACTCCATAAATATATTTAGAGATATCTCTAATTATATTTTGACTAGTCAAAATTATAATTCGACTACTCAGAATGACAATTAGAGATATCTGCAATTACAATTGTACTAGTACGAAATCAGATTGGAGATATCTGCAAATATATTATGACTAGTCATATTCCTCCATTGACTTCCATTGAAAAATATTTGCAGATATCTCTAAATGAATTTCGACTAGTCACAATTATAATTAGAGATATCTCCAAATGAATTTTGACTAGTAACAATTGTAATTAAAGATATATCTAACTGAGTTTTTACTAGTCATAATACATTTGTAGATATCTTTAATTCGTCATATTTAGAGATATTTACAAATATATTTGAAGATATCTCTAATTAATTTACTAATATTCGAATTACAGTTGTAGATATCTTGAATTGGATTTTTGACTAGTCGAAATTCAAATTCCACACCTGGGTTCATTTGACGTCATAGTACGGTACGTTTAGCTAGTGTAAACGTGTCTTCTGAACATGTGAACCGTACTCAAGTCATCCTGAAAGAGGTGGTCTGGGGTACGGTCCATGCGAACTCTGGTACGGTTCACTTCTGATGTGAATGCAATCGTATTAAATAACGGTAGTGAACCGCAAACTGTACAACAAACTATCGGTTTCATAACGTTTGTCCGTGTATGTTTGTGTGTGTCACGTTTCGTACCCTGTTGACATGCGCGGAATTAGGCCAGGGCAAACACAATGATACACAGTGATGTCTGCTTGTCTCCTCCAAAAACAGCTTCTGCAGACACTGTGTGATGTTCTGAATGTTTATTATATTTTTGCCAAATAACCCAGCTGAGGCTTGAACCAGCAACCTTCTCGCTGTGAGGCGACAGCACTACCTACTGCGCCACTGCGTCGCCTGAAATGAAATCAGTGTAATTAAATAATTTGTGCAAAACCAATTGTAATATTGTACAAGACTAGGAAAATCAGGCTGTGTGAGTACTGTATTGATGATCAAACACGCAAAAAATAATAAAAGTATATTTATTTATATAAGCATACGTTGGGCAAAACAGACCTGCCAAATGTTTGTATTACTAACTTCTCACTTTTGCATATTCTCTAG
Seq C2 exon
ACATGTTGAAGATCACTAATCTGAGGGTGAAGTTCACTAAACTGCACACTCTCGGCGACAACCTGCTGGACTCACGTATAGAGATCAAGGAGAAGTATTACTATGCTATTTACGACATGGTGGTCAGAGGAAACTGCTTTTGCTATGGTCACGCATCTGAATGCGCCCCTGTCGATGGAACTGGAGAGGCAGTGGAGGGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101209:ENSDART00000166930:6
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:
PF0005512=Laminin_N=FE(8.9=100)
A:
NA
C2:
PF0005512=Laminin_N=PD(18.2=63.2),PF0005319=Laminin_EGF=PU(35.5=32.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]