GgaINT0040793 @ galGal3
Intron Retention
Gene
ENSGALG00000004222 | F1NEI1_CHICK
Description
NA
Coordinates
chr6:11985347-11988446:+
Coord C1 exon
chr6:11985347-11985509
Coord A exon
chr6:11985510-11988297
Coord C2 exon
chr6:11988298-11988446
Length
2788 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ATGTCTTGTTTTCCACATAGAGA
3' ss Score
7.62
Exon sequences
Seq C1 exon
ATCGATAAATACCTTTACGCCATGCGGCTCTCTGATGAAACTCTGATAGACATCATGGCTCGCTTCCGGAGAGAAATGAAGAATGGCCTCTCCAGAGATTTTAACCCAACAGCGACAGTGAAAATGCTCCCTACCTTTGTGAGGTCCATTCCTGATGGCTCAG
Seq A exon
GTAAGGATCTGAGAATTTTCTCTACTGAAGATGGTGTGCTTCACGAGAAACCTGTTAGAAATGGTCCAAAGCACTACTGGGAGGAGTGAGTTGGAATTGTCTGGCAGGTGGAAGTCTTTGATAACTCTGCTGTTGTGTTCCTGCCACCTTATGCTTTTTTAGTTTCAATGCAATTTTCTGTTTAAAAAATAAAGATAGAACAAGCCCAATTCCCGCGTCTCCCTTAATTTAGCACTGCTAGACGTTATGTTGCAATGTTGTGTTGAAATTTGCAGCCTGTTGGGAAAGGCAGCCGTGAAGCTGCTGCATGCAGCCGGGTCACGGGCAGGGCTTGCTCTAAGGGACTGCAGGAGAGGTAACCACGTGCAAGTGCTGCTATAGTTTTGCAGATTGTTCCACGGTACGGACTGGAGATGTGGTGTGGCATGGGGAGCTCCTCCGGCTCCAGCATCTTTGTGGTATAAAGTGTAGATTCAGTACTGCTAGTTAAGTTTCTTTTCCTGAAATAGTCTGAGAGAAAACTGTCACTTAGCATACAGAAAGCTTTAGGTTTTGTTCCGAGCAGTTCTATCTTTTTAATGCAGAAGGATAGCTCTTACCAAATGCTACCTTGCTATGAGGCTGGCTGGAAATCAGCAGCACTGATCCGTCAGTTTGCTGCCAGGGAAGCTGTTTCTGAAGTGCAGGATTTGTTTGAAGTATGTACCGAGGTGCATTTAGGCTTGAAATAGGGCCATCTGGCCCAGTGTTGATTTTTCATTTATTTATTGAAGGTAATGGTTTACATTCAAGAAATGATACCCTGTAACGATAAAGCTTATTCAGGTATTTGGCTTAATGAGATGCTCGTGGTAAATGGTTCCTTCCAGTCTTGTCCCGATGAAGGTGAGGGACTGAATTTGTGATGCAAACCCCAGTAGGAGAACTGCATGTGGAATTTGGATGCGTTCACATTTTCAGTGACATCTTCAGTGATGCAAAGCAATATTCAATGCCTTGGTGTTCAGAAGCAGGCAGACATGCGCTGCACAGTCTGTATCTCAGCAAACTCTGAGCTTGCCCATGTCTTAGGCGGTGTGAAGAGAAGGCTGCGTTGCAGTGGAGTGCACTTCTAAGGGCTGGTAGGAGGCATGGGCTCCCATTGTCTTCTTATTGCATATTCTGTAAGCAGGCTGATGCTCTTTGTAATTTCTCATGTGGTGGTGTTTTGTGTGCTGCATTAAACCACAGTATTGTGAAACCATAAAGGCTTCTGCAGCGTATTTGCCTCTTTTGGCTGTTGGAGGGCTTTGCTGAGTGGAGCAGGGCTCCGGGGGTGTGGGGGGCGATGCGGAGGAGCTGTGAGACTTGAGGAGTTATGGACTGGTGTTGGGCAGTTATCTCAGAGGTGAGTCTGAGTCTGCTAATCCTCGTGGTACGTTGCATACCCTGTGTTTTGGCAGCACTGTGGAGTCAGAAGGCTCTGAGAGCGGAGCTGAGGTTTGAAACAACATGACACATCAATAGATATTGATCTTCCCAGCTGCTAGAGCTCTTTCCACGTAGAATATAGTTAGAAGTGGAGAAGTGATGATGTTGGGAATGGCCTTCCCATAGGCATAGAATAAAGTTGGAACAGCCTTAGGCTCAAGCCTAAAGAATGCCATGGAATGGGATTGGCAATATGGAAGGCAGCTGGGGGACGCAGCTCATCGCACCTGCAGTGCAGAGTACTTCTGGCACTGTCAAAAAGTACAAACCAATAAAAAACAAGGGTGAGAAAGCACTGCATGCTTGTTCTGCTTCCCTCTGAGCAGCCTGGGTGAGCCGGGGATGCTGTGTACACATGCAGGTGCTTGCAAATAGCCTCAGTGATTAGCTGCAGCCTGGGCACACCTGGCTGTTGGTTAAGGTGTGCTCGCTGCTTCCCCAAATGCTATCTTTTCACAGACTTCAGTGATGGCTGTCTTTGTTTGCTCTCTCTTTGATAAGACAAGATAGCAGGAGCGGTTCAGTCAGATGTATTTGCCTTGCTCTCCAGGGGGTACTGACAGTGTCATTTCCCAGATAGCTGGAACACCGTTGTGTATTTGGCTTCAGACCTCTGAAATGCTTCCCAGTGCAGAGGGGGATGGAGGCACCCTCACTTCTGCCCCGGCTCCTGGCGAGGTGTTTGGAGCTCTGTGCAAAGGCTTGCAGGTCCTGAGTAACTCCTGCGGCAGCGCAGGGCTCCGCGTGGTGTTTCAAGTTGCCGTTTCTCTGACTTCTGTTATCTCACTGCAGATTGCAGTGAATCTCCGCTTCTAGGGGTGAAACGAGTGGCTCCTGCTTAACTACATCTCCCTGTAATCTGTTGATTTCAGAGCAGAGCACAAACCAGCCACTATTTGCTGCTACTTGCCAAAGTGACACAGGCTTGCTTACAACACAAGGCGGCTCATCAGTGCTCTGGCATCCCTTCATTTCCTCTTCTTTTTCCAACATCCTTTCAGCTTTCTCCTGAGATCCTTGCTCTGCCAGCTTAGTCATGAGATCTGGATACAAACTTTCCGCTCTTGGTTCATTCTTTCTGGATGAGCCCTCAGTGCAGTTACCCATGCATCGATGGCAGCCGTCCTTGCCTTTGCACCATTTTCATCTTCAGGGGGAGGGAACTGGGCTGACACTTCGCGTGGACGCCCTATAGCTAAAGACTTGCTTGCCATAAGCACTGTGCATTTCTCCATGCATTATAAGTAATAGAGCTTACGTTTTCCCAAATGCGTGTTGCATGCAGCTTTTAATCTCCCATGTCTTGTTTTCCACATAG
Seq C2 exon
AGAAAGGAGATTTCATCGCTCTGGATCTCGGTGGTTCTTACTTTCGAATTCTGCGGGTGAAAGTATCGCATGAAAAGAAGCAGACGGTACAAATGGAAAGTGAAATTTATAATACACCTGAAGATATCATTCATGGCAGTGGGACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.060
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=FE(26.1=100),PF0481510=Sec23_helical=PD(72.1=89.1)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(23.7=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]