GgaINT0126194 @ galGal3
Intron Retention
Gene
ENSGALG00000002626 | F1NH64_CHICK
Description
NA
Coordinates
chr17:8022459-8026973:+
Coord C1 exon
chr17:8022459-8022628
Coord A exon
chr17:8022629-8026843
Coord C2 exon
chr17:8026844-8026973
Length
4215 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
TTTCCATCTCCTCTTTGCAGCCC
3' ss Score
11.47
Exon sequences
Seq C1 exon
CTGTGCAGGAGGAGAGGCAGCGGGGGAAGGACCGCAACGAGAACGAGGTGGAGTCCACAAGTAGCGCCAACGAGGACATGCCCGTGGAGAAGATCCTGGAAGCAGAACTCGCTGTGGAGCCAAAGACAGAGACGTACATTGAGGCAAACATGGGCCTGACGCCGAGCTCG
Seq A exon
GTGAGGCACCTGTCCCTTGGTCCTGCTGCCCCATCCCTTGGTCCTGCTGTCCCTGCATGGGGACACAGCAGGGAGCTGGGGCTTGGTGTTGGCATGGCAGTAACCCAGCAGCCAGCCTGTATTCGGGTCAGGGCAAGGTTAGCCTGTGGGAACCGGAGCTCAGCAGTGCAGCTGCTAGGTGAGCTCAGGTGAAAGCCCAAGGAAAGCAAACCCCTCTGCCCAGTGCAACCAGTAGCACTGGTGCTCTGCTGCCTGGCGGCCATAGAGAATGGTGCTCCATCCACAGCTGCAGAGAGGAACAGACACTGCAAGGTGTAATTAGAAGGGCTCACGGAGATTTTGTTTTAGTTAACAGCCATTAGTGCTAAAAGCAGGAAGGCACTCCATGCTCTGAAGAGCTCGTAGTCCAATCAAGGCAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGAGCTTTGTGGCTGAAGTGCAAAGAGATAAGAGCTGTAGAATTGGGGCGGGACTTTTTGGGCGCTGAATTACGCAGCTGGGAGGCTGTGAGAAGGGGAAGGCTGTAGAAGTTGGCTCTCACAGTCCCTTTCCCATTGGAAGCCTGCATTATAGCAGGGCCTGCTGGAAGCAGCAGGGCTCTCACAGGGCCTTGTGCAAACAGGAGAGAGCTGGCAGGAGGAGAGTAGAGAGTGAGAAGCTGTCAGAGGGAAACTGTCTTGGTGCTTTTTCTTAGAAAATTCCCTTATCAGCATCCTTGCTTTCAGAAAGCCTCACTGCAAAACAGCTGCCTCCAAATGTGAGAGCCAACCTATCCTCTGGAATTTGGTTTCTAGCACAGAGCCCTCGAAAAGAGCCTTATTGCAGAGCTGCACTCACGACCCAGCAGTTGGGATGCAGTGCTGATTCCTCAGTACCCTCAGTTCCCATGAAAGCAATGTTCCTCTAACTGTAGGGCACCTCCTGGCTGTCCAGACCTCCTTTAGGCTCCAGCTGGAGCTCTGGAGCACACAGCTGCCTCAGCCAGGACAGCAGGAACGTGTGCTGAAACATCCTTTTGCATCTATTATTGCTCTGCATGTGAGGACCTAATCTGGCAGGGTTTGGCAGGAGATTGTTAGGGGCCCACGGGATGCTCTCTTTAGCCTTAACCTACAAGGGTGCTTTGTGGCTTGCTAAGTGAAGCATAAAGCATCTTGCTTAGCTGATTCCTAAGTGAAACTCTTCAGAAGCTCCTTGAGCATGGCACTGCTGCCCCATAGCCAGGAGCTTGGCTGCAGGGAGCAGCGCTGCCATGGCCAGCAAGGGGCTGGGAGAGCTCTCAGGAGTGGAAATACTTGAGGGGAGTTGGAGACAGCATTGTGCTGGCTTGAAAACAAACCCCAGAGAGCAAGGTGAAATAAATGGGTTCGTCTGGCACTGCGTCTCCTCAGCCTCTTGTAGCAAATTGAAAGCCGGTTCCTGCATAATTCAACACGCATTACTGTGAACAAGGATGTGTGTTGCATCTAAATAGAAGCAGGAGGCTTGTTGAAATGCCCTGTTGTTTGTCGGGCTTCTGCCGATGAGGTGACATTTGTAGCAGGTTTAGTGGCTATATGAGATCAGCAGCGTGGTGATGGTGGGGGGGGGATGGAGGTGTCACCCTCCTCCTGTGCTCCACTGTGACACGGAGGCACAAATTCAGTCCTTAATAGATGCATGCAAGCTGTTGCCTTCAGCAAGGCAGGTTGGGTCCCTGTGTTTGTGCCTCGCACCTTGGCACATCTCTGAGCACTGCTGGAGGGGCAGCACCCAGGTGACACTCTGCTGGGTGCTCTCATGCTTGTGGCTGTCACCTTCCTGCCGCTGTCCCCTGGTGGCTGTGGGAGCAGAGGTGCCTTTGCTTTGCAGCCTGGCAGTGGTTTTATCCTCCAGCCATAGGGCTTCGGCACAGCTCTCGGAGCTGATTGAAGGGGAGGGCAGTGGGGGGAATGCTTGGCTCTGTCCCAGCACTTTGGTTAGCACCAGGGGAGGTGGGTGCAGTCGTGGTATGAAGCCCATGGTGGGGAGGGGTGGCTTTGCCTCTGCCCCTGCACCCCCTGGCAGCCTCAGCACTACCTTGGATGGGCTCCTGACTGCTGAAAGGCAAAGCCTGTAACTGAGAGGTTTTATCCCCCATGAGTTCTCAATCGGCCTCTAGCAGCTGGTTTCAAGTCACCATTTTCTAGAAGATGCCTCCAGGCTCTGGTTTTCCAGCAGGATCAGTTGCCCTCCTGTCCTTTCGTTCTGTCACACTCCGGCACTGTGCCCTTGCTATTTACTACAGGGGGGGATTTGCTTTCCATGCACGGGGACAGTTCTGAGCACTGCATCGCAGAGCCCTTCCTGGAGGTGAGGGGAGCCCTCTGGCCCATGGGGGGCGATGCCTTCAGCTGCTTCTCAGCATTAAGATTCTGCCAGGAAGCACCGTGGTGGTTCCAGGAAACGCGATGTGAGGCAGAATTAGCACCAAAAGCCAAGGGCAGATTGTGCTGCCTGCAGAGCAGCCGTGGTGCGTGCAACCTGCGGGAGCTGGGTGCTGGCATTCCCCAGGGAGTTATGACAATCACAGAAGTTGCGTTGGAAGGGACCACCTTAAAGCACATCCAGCCCCATCCCATGCCATGGGCTGCTTGCCCCAGACCAGATCAGGCTGCCCATAGCCCCATCCGTTCTGGTCTTGAGCACCTTCAGGGATGGGGCATTGCCTAAGCTCTCTCGAGCAGCCACCAGGGCTGGGGGGCCATCCCTATAATGCTCCCCCCTGACCCGTGGTGCTGAGCGCCAGCCCGTCCCCATCCATCTCTGTGAGCAACAGGTGAGAATACTTTGAAGGCGGGTGCTCCTGCTCCTGCCAGATGCTGGTTATTTTAAGCCTGGAGATGAGAGATGTTGGCCACTGAGACACAGAGGTGATGTTTGCTGCCAGGGGACGGCAGAGCCATCCGGGCAGGGGAACATAGGGATGGCTCTGGGCAGAATTGTAGGGCTTTTTCCTTTTCTCAGAGCAGCATTTCGCACCTCCCTTTGGTTTGTGAGCACTTGCTCGGCTCTGCAGTCAGCAAGGGAAGGGTTCTTTCCACAGTGTTTTATTCTCTGACCTTTTCCCTTTCGATCCCCTGGGGCCAAATGCATCCCTTATGGCGTGCCCACCTCCTGTTCGCTCCATGCAGCTGGGTAAGGGGCATGCACTGCATACAGAGAGTCCCACAGTGTGCTAGGCAGGTACCTCAAAATCCACAACATCGAGGGAATATGAGCAGAAGAGTGAGAAGTCAGCAGTGTGGGTGGCAGAAAGAAGGTGAAAAGGAGAGAAGGAAGGAGCACACCGTGGGGCAGAGATCTGTGCATGGGGCAGCTCCTGCCTTGGCTGCACAGAACCCGTGCCCCAGCCCCATGCAATCCGGAGGTGCAGCAAACACTCCTCCTCTGAGTTTGAAACTGTTCTTTTAAGGACATGGAAGAAAAATAATTGTACAGTCAAAGCTGCTAGGTATCAGTGGGGATTACAGCGGGATATGTGGAGGGGCTCATACATCCCTGTCCAGAGAGGTAAACCATATATACACACTTGTGCTGGCAGGGTCTGTCTTTGCTGGGGTTAGACGGTCTCTTCCCATTCCTAATCACAAACCCACTTGAGCTGTTAGCAGTTCCTTTAAACAGGGATTTGGTGTGTTTAGGCTGACTGTCCTCTTTGAGAGCAGATGGTTTGTGTTACTGGGTAATATTTCAAAGGAGAGGGCTTTTCTCCTTACTGGGATGCCCGCTCCACGCTGTGGGGTGCAGTGAGGAGGTGCTAGCACTGGGGATGTTCACACTGCAGGCTCCCTGCAGGTGATACCCACATAGATTGAGCTCCCAAACCTGGGGGGCAAGCAGGCAGCAACCCCTTCCCTCCTCCTCCCACCTTTCTCCTTGCTTCCTCCAAACCTTTCCATCTCCTCTTTGCAG
Seq C2 exon
CCCAACGACCCGGTGACGAACATTTGCCAGGCGGCCGACAAGCAGCTCTTCACCTTGGTGGAGTGGGCCAAGAGGATCCCCCATTTCTCAGAGCTGCCCCTGGATGACCAGGTCATCCTGCTGCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002626:ENSGALT00000004139:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.561 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(3.7=12.3)
A:
NA
C2:
PF0010425=Hormone_recep=FE(22.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]