GgaINT0072414 @ galGal3
Intron Retention
Gene
ENSGALG00000014144 | F1NZW6_CHICK
Description
NA
Coordinates
chr4:68599790-68604592:+
Coord C1 exon
chr4:68599790-68599897
Coord A exon
chr4:68599898-68604475
Coord C2 exon
chr4:68604476-68604592
Length
4578 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAAT
5' ss Score
5.18
3' ss Seq
TTTTTTAAATTTTATTTTATTTT
3' ss Score
-0.13
Exon sequences
Seq C1 exon
ACTGCAGTGACGATTTATTTCATTGCAACACAGGAAAATGCCTCAATTATACCTTTGTTTGTGATGGATATGATGACTGTGGAGACCTTAGTGATGAAGAGAACTGTG
Seq A exon
GTAAATGAAACATTTATGCTTTTCTCTCTCTCTTTTTTTTTTTTTTTTAATATAGCAGTATTGATAATAAAGGAGTAGGATACTCTATTGCTACTGTTTTAGGGCTAAGTAAAAACAGTTATCTTCTTTCCTGTTGCTCCCTTTTAGCTATTGAAATTTAGATATTGGAAGGCTGCTATCAGGTTGCCTTGGAGCCTTCTCTTCTCCAGGCTGAACAGCCCCAACTCTTTCAGCCTGCCCTGGTAGGAAACGTGTTCCATCCCTTAGAACATTTTTGTGGCTGTCCTCTAGGCATATTCCAACAGGCCTGTACTGAGGACTCCACATCTGGATGTAAGATCGTTGAGTCCAACTCTTGGCTCTGTAGAGGACCATCCCAAATTCAAACCGCATGTCTGAGAGCATTGTCCAAATGCATCTTGAATTCTGGCAGGCTTGGTGCCATGACCACTGCCCTGGGGAGCCTGTTCCAGTGCCTGACCACCCTCTTAGTGGGGAACCTTTTCTTAATCCTTAACCTGACCCTCTCTTGACACAGTTCTGTTCTTTCAGATTGTGCTGCTGTCACCAGAGGGAAAAGATCAGTGCCTGCTCCTCCATCCCACTCATGAGGAAGCTGTAGGCTGCCATGAGGCCTCCCCTCATTCTCTTATCCTGTGTCCAGATCATTTATAAAATCTTTAAATGGAGCTCTGGGTATCCCACTATTAACTGGTCTCCAGCCAGATGTAAACCCATTTAGTATAAGCCTTTGAGCCCTATCTGTCAGCTGATTGTTCACCCATTGTATTGTGTACTTGTCTAGCTGTATGCTTGACATTTTGTCCAGAAAGATAATGTGAGAGAGAGCATTGAAAGATCTGCTGGGAAAAAAAGAAATATATATATATATATATATATATACACCTGCTGGCTTCCCTGGGTCAAATAAATGAATAATGTCACAAAACAAAATTATGTTATTTCAGCAGGACTTTCCCCTGGTGCTCCTGTGTTGACTATGACCAGTGACTGCATTGAGAGGTCTCCCGATAAGCCACATCCATCAGTATCCTTGGATGAATCCCATTGTGGCCCATAAACTTATGTGCATTCAACTGGAGCAGAAAATCCTGAACAAGTTCAGCTAGGAGTTTACTATGACTGAGGGAATGGTTCTCCATCTCAGGGGTCACAGGGTACATCACTGTTGTTGAATACAGAGACAAAAAAGGCATTAAATGTCTCTGTTTTATCTTTGTCCCTATTTGTGAAGTGTCAAACCTCATAAAGTAATGGACCAATGTCATCTTTGATCCTCTTTTTGCTCTTAACATACTTTAAAAATCTCTTCTTTTTGTCCCTTACATTACCTTTTGGTTTCAATTCTAAGTGAGCTCTGGCTACATGATTTTTGTCTCTACAATGGCAAACAACATATCTTATTCTCCTGTTCCCTGACATTGCTTCCAATGAGATGGCTCTTTGAATGTGACCTTCATTTATGGGCCTTAGTACGTCAAAAGCAGATTCTCAGGGAACCTTACTAAGTAGTTCTTTGAGAAGCCTGAAGTCTTCTCTTTCCATTCCCAGTGTTGAAGTTTTGGTAGCAGTTTTTTTAAGGGATGAAAGATTTGAAACTCCACTACTTCATGGTCACCATTTTGTGCACAAGACCCTTTTTGTTTACAAACTACAAATCTACGAGGGCACCTTTCTGAGTTGGTTCCCTTAGTACATATACCAAGAATTTATCTCAGAAATTCGCAAGAATTTCTCAAGACTTTCCTGGAATTTCCTGGACTTGTTTAGGTGTCAGCTGCAAGATATTTCTAGTTAAAATCTTGGAAGCTGAATTCACCCATAAGGACAAAGGCAGCTGATTTAGAGATATCCTTTAATTTCTTATAGGATAATTCATCAATTTTATCATGCTATGTGGGCTGTCCATAGTAGACTCCCAGTACAGCATCCACTTTGGTTTTTTTTCCTCCTTAATCCTTATCCAGAGACTCTCAACAGTGCCATCAGTGATGACAAGTACCATACGGCCCAACCCTCCCTTTGCATGCTATGCCAAACCTCTTCTCTTGCCCTTCCTATCTCTTCTGAAAAGCCTATCACAGCTGTCCATCACAGCACACCAGTTGTAGGACTCTTTCCTCCAAGACTCCCTTATACCAATGATGTTATTATATCTCTGGGACTGAGTGAAAACTTCTTGCTTATTCCTCTTCCTGCAACCATTAGAGTAGAAACATTTCAAATGTGCTAAAATGTAATCACGTTCAGCATATTGTGGAGCAGAATGAAATACCTCACTGGGATACAATCCCTCAAACCCTCCTTGTGGAAAAGTGTATCCGAGCAGGCACCCGCAGGCCTGGTACTTTGTAACCATTTCCTGACAAAAAATACCCGAATTCTGCCAGTGACACCAGCCTTAGAGTCAGGTACTGATGTGTTAAGTCTGCTTGTTTTTTTTCCCCCAATATCATATTCCACAACTGAAAAGATAAAGGAAAACACTACCTTTGTGTGTACCTCATCCCAAATCCCTGTAGGCTCTGAAGTCTCTTTAACTTACTCAAGATGTTATGGTTGCTTTCTTACTAGCTTGGCTGAATTTGACTGAGACTAAAGTAAAACATAAGAGGGTGCACTCTGGTGATGCCAGCAGTTTCAGAGCTGAACTGTTCTTACATGAGCTTCATTGTGAATTCACATATTTTGATGATACAGTTATACTTCTTTCAAATTCTGTTTTGAATTGACTTTGTAAATTCTGCATCAATATATTTGTCATTCTGCCCATGTTTATTTTCATAGGGGAAAAAATATTTTGCCATAAGAAAGAATAATCTTCATATATAAATATTTGAAAACTCTGAAAGTCCTATTTTTTTTCTATCTTATCTTTCTAGTATTGTACCTCAGAAAAACTGTTAAATTCTTTAAAAGTTGAAATATTATTTTTATATATATATATTTTCTTTTACTTTTCTAGGAAAAACACAGAGATTTTTGAAACTAAAAATCAGGATACATCTTTTATTTGAGTTTTCTTTTATATTTCTCCTCCCAGTTAAAAAAATACTCAAGGACTTTTCATTACTTTCAGTTGTCATTGGTTGTTTTGTGTTTTTTTTTTTTTTCCATAAATCTGCTTTGATTAAAGGCATTAGTAATTATTAATCTGACTCCTACCATTTCTATGTTGAGATACAATGTAAGATCTAACTTTTTGTACAGGCTATAAAAGAGATTGAAGGGACATGTGGCAGGCAGGAATGTATCTGTATTCCCTATCTACTTTGGTATGAAGTCAACCGAAGTGGCTTAACTGGCTGAAGAAGACTGTGTAAATGTACTTAGCCAGTTTGGCCATGAGTTGGAGATAGTAAATTAATCACAAAGTAGAACAACAGTTGCTGGATTTAATTGATACAAATTCCTTTCACTGCTGATTTGTCCATGTTTACAAGGCATTCTGAACTTTATAATTTATGAACACATTATATTATTTAATATACTTTTTGTGTATGGCCAAGTGTTGACCATAATCCTTAGATATTACCATACGAGTACTTATGAACAATTCTGTAAGTCCCCACACTATACTGTGGACAAGCAAGAACTTACTCTGTCTGTAGTCCAAGCTTTATAAAAAAGCTTGTGATCAAAGCTAGCATTTCTAAAGGTAACATTACTAAAATATATACTAATAGAGCCAGAGCTGTGGCTTCCTCGGAGTTCAGAGTGGAGGCAGTTTCTTCTGCTTATAATGTACATTGTGAACATTTCCTTCTTAAACTGCTGGATATTTACAACTATATCTCCACTGGCTGAAATGTCCAAAATGTCTATGTGGTCAGTGTTTTGCTCTTCAAACATGAAATAATTGTGACACCAAAGCTAAAATGCAGGTATAGTTAGATAATTATTATTCCCTTAAGCCTATCAAGCATTTTCAATGATGTGTATTTCCTTTGATCAGCCTACCAAGTAGAATGATTTTCTTTTCATTTGTGGAAGCACTGGAGTAAAAGGAGTAAAAAGATTGGAATATTTACCTTCTAGATCATTCTTCAGGAAAATTCTGGTTGTATGCAAAAACATAATGGTTTCAGTTTAAGTGGCAAATAAGTCAGTTAAAAAATGCTATGTTTTAAATTTCCCACTAAAAAGATAAACGTAGAGAATAATTTTCTTTGATGGAAGACTTTTGCATGTGATGGGAAATCAGATCTTTAAATCAACCTAACAGATTTTAGAATTTTGTTTATTGGCCAATGGAAACAACTGAGAGAGATGTGGTTTCCCTCAGGATGCACCTGAGAGAAGGAATGAATGCATCACTGTCTAAGTAGAATTTAGTAAGTAGAATTCAGAACATACTTAACCATTATCTACTAAAATAAAAAAGTAAATACGTAAAGGAATATAAAACTTACATTGTAACTTACTTAGATAATGGCATAACTTATGTGCATGGAACAATTAATTGTTCACTAACAAATTATGCATATGGTGGTTTATTCTCCAGTTATAGTTTGTTTATTTTGGTCTTGATTTTTACTTTTTTAAATTTTATTTTAT
Seq C2 exon
TTTTAGATTGTAATCCAATGACTGATCATCAGTGTGGAGATGGAAGATGTATAACAGCTGATTGGGTATGTGATGGTGACCATGACTGTATAGACAAATCAGATGAAATCAATTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014144:ENSGALT00000022884:6
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:
PF0005713=Ldl_recept_a=WD(100=97.3)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=95.0),PF0005713=Ldl_recept_a=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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]