GgaINT0059798 @ galGal3
Intron Retention
Gene
ENSGALG00000008332 | F1NXV6_CHICK
Description
NA
Coordinates
chr5:25587956-25589710:-
Coord C1 exon
chr5:25589640-25589710
Coord A exon
chr5:25589236-25589639
Coord C2 exon
chr5:25587956-25589235
Length
404 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TTCATTTTTCTTTGCTTTAGAAC
3' ss Score
9.99
Exon sequences
Seq C1 exon
GTTACAGTCCTGAAGACTCAAAGAGAGGAGATGCTTGTGAAGGGGACAGTGGGGGGCCTTTTGTAATGAAG
Seq A exon
GTATGTTCAACAAGCTCAAAGACACAGAGCTGGGATTGTGTGATGCTGAAGTTGTATAATCACCTGAAAAAACAGCAGCAGAGATGAAAACTGCTGAGTGGCTGAAGCAAATCAATCTGAAACCTGAGCTGATCAAATAAGATGCATCCTGCAGTCATCTAGCTCAATTTCTTTACTGAGTTTCCTGCAAATACAGAGATCAGCTGCAGAGTTGCTAAGCAACGGCCAATTCCCACTTAGAGGTTTAAGAGTGAAGACAAAGTTATGCCAACAAGCTATCTGATCTAGTAGATACCTGTCTAAATTCTAAAGCGATATCCATGATGTAAAATGGCTGTGGCACAAACAAGTCTAGATCTGAAAATCTCTTGCTCTCATGCTAATTTCATTTTTCTTTGCTTTAG
Seq C2 exon
AACCCAGATGACAACCGCTGGTATCAAGTGGGAATAGTTTCATGGGGAGAAGGCTGTGACCGAGATGGCAAATATGGATTTTACACTCACGTATTCCGCCTGAAAAAATGGATGCGAAAAACCATTGAAAAACAAGGATAGAAGAGAGCTTCCCTTGCTTGTTCTCAGTTCTGCTACAATACTCCACTTCTTAAAAACATACACATTGAACAAATCTTGAAGTGGAAGTTAAATCCCTGCAACTTGACAAAGGAACGTGTTCCTCCTTGAAAATAAAAGTTCTCAACCATCTTCCTCCTTGTGTTCATGCTAAGCTGAACAGCACCTGAATCCATGCCATCACAATAGCTAGCAGCACCAACACAACAGCACCTGCAGTACTGCTAGTTAAGATGCTGCCCTTCAAGTGTTCTCCTCTACTCTATCAGCAGTAACAATCAACAGATTTTAGACTTCAGATGATGGACTTCAGTCACAGTAAGCAAGACGTCCCTTGGACACTGTCCATTCCCCCCTTCAACTAAATTCATTTTCTGTTCTAGAAATCTGAAAGGATAACAAGCTGGAGATACCTACCCACCTTACAAGAACTGTAGCATTATTCAAAATGCCACATCAAGACTAAAGCAACTATAGCCTTTGTTGATAAGACAGACATTGTTCTCAGCCACAACAGCAGCAACAAAATACCATCTGTGCTTCTTACAAAGTTAGTGTCTTAAGTTACAGATGTCATCTATGTGCAACTAATGAGGTACAGAAATAGGGGGTTTGAATAGATGAAGTAACACACGCATTTCTGCATAGCAGTAACTTTCTATATGGCAAGTACTGCTGGGACTTGAAAGTATATTTTCCACTGGCATAACTAGATTCAGAAGGAAGCACTTCGTACACACAATTTTCAAAGGTCTTCCAAAGGCAGCATCTGTCACTGTACCTATTTTGTTCTTATAAAACTGTTTAGGATTCACCCTTAAAAGAAGCCCCACTTCTTTCATGAACTCTTCAGCAAAGACACAGAAGTACAATAGTATTATATAGACTGGCCAATCTGTTCAGACCAGTTTTCTCTCAAACTAAAGAGGGATTTGGAAGCTATCTTTGCTCCCCAAAACATCATTCTCAAATCCCTCATCCCTCACAGTGCCATCAACTTACAGAAACAAGCAATAGACAAAAGTTGTTCCTGCTTAAATGGAGTATTAAAGGAGAATGACTTGAAAAAAGATGGTAGAGAGAACTATCCAAAATTTGTTGGAAATAAACAGTTATTAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008332:ENSGALT00000013559:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.417 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(9.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(14.9=78.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGATGCTTGTGAAGGGGA
R:
AGCATGAACACAAGGAGGAAGA
Band lengths:
357-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]