GgaINT0013036 @ galGal3
Intron Retention
Gene
ENSGALG00000002201 | Q6PVZ7_CHICK
Description
NA
Coordinates
chr14:14021604-14024989:-
Coord C1 exon
chr14:14024897-14024989
Coord A exon
chr14:14024271-14024896
Coord C2 exon
chr14:14021604-14024270
Length
626 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
AACTACACACTCTTCTTCAACAA
3' ss Score
-4.97
Exon sequences
Seq C1 exon
GAAGCTGTTCTGGCAGCCAAGTTCACCGAAGTGAATGCTGTGAATAGGCAGAGGCTGCAGAACCTGGAATTTGCTCAGAGCCTCCTGCGGCAG
Seq A exon
GTAAGACATCCCCCACACACAGAGGCTCAGGACTTGGCTGTGCTGTGTGGCTCCTGAGGGTCAGCTCACTGCGAGCTCGAGGTCTTGGCTTAGATCTCTGCGTGCTGCAGGCAGGCAGCTTGACACAGCTGCAACAGGCTGTGGCAGCATGATTCTGTGAGAATATTCACAAGAATCACACACACATGTGCCTTTGCCATTACAAGCTGAAGTGAAAATGAATCTAGCTAGCGTTTCATGCCCCTAAACCCAGTCAGCAGACACCTCAATGAAGTGCTCTGCCTGGGATCAGGCAGAAGCTCTCCACATTTTCCAGTTCCCACTCATCCTTGGAAGCTCTGTGTTATTTCTAACACTTTATGCCTAGCCCATACCAGAATGTACATCTCTCAGAGCTTAAAGCTTTGTTGGGACAGCAACGGGTATCACTGAGAGCGATTTCCAGGCCAGGAATCCACAGAGCAGTTCAAGAAACACCCATCTGCAAATCCACCCTGTTGAGTGTTTGCAATAGGCAGCCTCCATTAACCCAGATCAGCATCCTCCTGTAGTACTGTCACAGGAGTGAGTGGAAAATAAAATAACCGAATGAGCTTATTGGTGCTTAACTACACACTCTTCTTCAA
Seq C2 exon
CAACAGCAGCCAGAGGCTCAGGTGACGCAAGACTTCATCCAGACCAAAAAATCTGTAAGGCCTGTGGAAGAAGTCTGGAAGTTGAAGAAAGAGCTTGAGGATGAGACTCAGCGTCGGCAACAGCTAGAAGCAGAGATCCAAGCCATCAAGAACAACATTGTCCACCTACAAAACCAGAAGCCCCAGGAAACCGTAGTTAAGAAGGAACTGGTGAAGAAAGTGCCGGACCCGCAGCTGGAGGAGAGCTTCCACAAACTGCAGCAAAGCCTGGCGGAAGAGCAGCGCAAGAACCAGGTGCTGCAGGATGAGCTGGAGGCCCTTAAGATCAGGCTGCGTGTTTTGGAGCACGAGAAGAAGGAAGGAGGGCAGGAGTATATAGTGAAAGAGGTGCTGCGCATTGAGCAAGATAAGGCTCAAGCTGAAGAAATCTTGAGGCTCAAAGAAGAATTGGAAGAGCTCAGGAGGCAGGAAGGAACCAGGGAAAACGAGGTTATTCTTTTACGCCAGCAAATCGCTGTGCTGTCCAGCGAGAAGAACAAAGAGCAGGAGAAGGTAACAGAGAAAGAGGTGCTGAAGCTGCAGAACGATCCCCAGCTGGAGATGGAGTTCCGGATGTTGCAAGAGAGCAAGCAGAGGGAGAGTGCTCTGAGGCAGAAACACGAGGAAGAGCTCAGCTTCCTCCAGGAGAAGCTCAAACGCCTCGAGAAGGAACGGGCCATCGCTGAGGGCAAGATTACTGTCAAGGAGGTGTTAAAGGTGGAGAAAGACGTGGCCATTGAGAGGGAGGTGAATGAGCTCCGGCGCCAGTACGAGGATGAGAAATCCAAGGGGCGTTCCAATGAGCGGGAGAAGGCCGAGCTGCTCAGGAAGATCCAGCTGCTGGAGGAAGAGAACGCCAAGGTGGTTGTCCAGGAGAAGGTGAGGGAGATTGTGCGGCCAGATCCTAAGGCTGAAAACGAAGTCGCCAACCTTCGGTTGGAGCTGGTAGAGCAGGAAAGGAGATACCGGGGTGGTGACGAACAGCTGAAGAGCTGTCAGAATGAACTGGCTGCTCTGCGGAACAGAGAGCCGCTGGTAGAAGTCAAAGAGGTCATTAAAGAGGTCATTAAGTACAAGAATGATCCAGAAACCGAAAAGGAGCTACAGCGGCTCCGCGAGGAAATCATAGAGAGGACGGCAGCAATTGAAAGAGCTGACCTTGAGATCTACCAGCTGAAACAAGAGATACAAGCTTTGAAAGATACCAAACCTCAAGTGCACATGAAGGAAGTTGTTCAAGAAATTCTGCAGTTCCGGGAAGACCCGAAGACAAGAGAGGAGGTGGAATCTCTGAGAGTGCAGCTGGCAGAGGAACAAATGAAGCACGTTGACCTGGAGAGGGAGCGGCTCCTCCAAGAAGAGAAAGTAAGACAGAAGGAGGAGGAACTTTCCCAGGTGAAGGAGAAAGTGGTCCAGCAGGAAGTAGTGAAGTACGAGCAAGATCCCGCCTTGAAAGCTGAAGTGAACTCCTTCTCGCAGAGCATTGAGAGTGAGCTGAAACAGATTGATTCCCTCCGTGAAGAACTGCGCAAGCTGCAGAGGAGGCGGTCTGAGCTGGAGCGACAACTGGAAGAACTGGAGAAGGAGAGACAGGCCCGCAGAGAGGCGGAACTGGAAGTGCAGAGGCTGAGGATTAGGTTGAACGAGTTGGAAGAGCAGGAGAGGGAAACGACAGAACGAGTAACAGTGAAACAGAAAGTGATCCTCCAGCAAGATCCCCAGCAAGAGAAGGAGCACTCCCTCCTCAAGCTGGAGCTGGAAGAAGAAAAACACCGGAGACAAGTCTTGCAAACTGAACTGGAAGCCTTGAGAAAGAAGCTCCTTTCGTTGGAGAAAATGGAGGTCAAAGAGAAAGTTGTCTTTTCAGAGAGCGTCCAAGTGGACAAAGGAGATACGGAGTATGAGATTCAGAAGTTGAAGAGCAACCTGGAGGAGGAGAGCAGACGTAAGAGGGAGCTAGATGCGGATATCAATAGGCTTGAAACCAGGCTGTCCGAGGTGGAATTCAACAACTCGAAGTCATCGAAGGAACTAGACTTACTAAGAGAGGAAAACCACAAATTACACCTTGAAAAGCAGAACCTGCTGATGGAAACAAGGAGGCTGCAGTCAGAGATTGAACTCACAGCAACAGAAGCTCGGGATTTGAGAAACATGACCCACATGGACAGCGGACCAAACCTCGACTCCAGATTCCAAGCTCTGGAAAGAGAGTTAGATGATCTGAAGCAGCTATCTAGAGAAAAAGACGCAGAGATAGAACAGCTCCAGAACCGCCTCAAGACGGTGGCCATCAAGAGGGAGCAAAGAGAGAACCACCTGAGGCGCTCCATCGTGGTCATCGATCCGGACACAGGCAAGGAGATGTCTCCAGAGGAAGCTCACGTGCTCGGCCTCATCGAATGGAGCCTCTTCGTCAAGCTGAAGAGTCAGGAATGCGACTGGGAAGAGATCTCAATCAAGGGGCCCAATGGGGAATCATCCGTGATCCTCGACAGGAAATCAGGCAGAGAGTTCTCCATCGAAGATGCCCTGAAGAGCGGCAGGCTGAGCACGGCCCAGTACAACAGTTACCTCAACAAGCAGATGTCAATCCAGGAGCTGGCGGTCTTGGTGTCTGGAAGTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002201:ENSGALT00000003446:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.169
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0068115=Plectin=WD(100=4.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTTCTGGCAGCCAAGTTCA
R:
TGCAGTTTGTGGAAGCTCTCC
Band lengths:
349-975
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]