BtaINT0038227 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008028 | CHN1
Description
Bos taurus chimerin (chimaerin) 1 (CHN1), transcript variant 2, mRNA. [Source:RefSeq mRNA;Acc:NM_001113247]
Coordinates
chr2:22072095-22078744:+
Coord C1 exon
chr2:22072095-22072232
Coord A exon
chr2:22072233-22078638
Coord C2 exon
chr2:22078639-22078744
Length
6406 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
TATTCATCTTGCTGTTACAGAAA
3' ss Score
8.39
Exon sequences
Seq C1 exon
ATGGTGAGAAAGCAGATATTTCTGTGAACATGTATGAAGATATCAACATTATCACTGGTGCACTGAAACTGTACTTCAGGGATTTGCCGATTCCACTCATCACATATGACGCCTACCCTAAGTTTATAGAGTCCGCCA
Seq A exon
GTAAGTATGTAGGCATGCGCTTGTAACCTGAAAAACCGTCTCTTCTAGGTAATCACATCTCCTGTTTTTTTCTGCTGAGTATCTTGAATGCATTTTATGAAATGTTTCTCCCTGGCCTCTCTCCATGGCTAATGTACTCACAAGAATTTTGAACTCTTCTCTAACATAGGTTATTTATGACTTCTACCATCAGAAGCATCTTTGTAATTTGTAACCTTTACTTTCCACAGTAAGGCTTAACACCAGTTCTCCTAGACATGAACAGTAGTTTTGTAAAGTAAAATAAAAATAACTAGAAAAACAAATTGAAAAAATACCAACTATCTGTTGTTAGATTGAGCAAACACAAAGATGACTCTGTCAGACGGCTATAAAATATATAAATTCTTACTTTCAGTTTCTGTCCTTATCCTGTGACACGCCAGTAACAGTTTGCAGACTGGCTCAGGTTCATAGATTATACTTTAAGAAGCTCTGTTTTAGATCAAATGTTAAGAAATAAAAGTTTTAAAAAGTTAACTTTTTAAAAAGTTAAAAAATAAGCTCTAGTTAAGATGAAAATGAGAAAAAGCAAAGGCTCATTTGCCAAATTTTATTTATGGTGCAAAAATCATACCTGTAGTTCACACTTTTTTTTTTAAAGAAGGGAATTCTTAACAGATTTTAAGTGTTGGCATTACCTTTTTTTTTTTTTCTGAAAAGATAGGCTATTTCCGTCGTTTGCTCTCTCTCTTAAAAACCATATGTTGTCTTGATCTTTAAATAATAACATCACTTCCTTAGTAACACTGATTTGCTTTCTGATTTTGGAATTTCATGAAGTACAAACTTTCTTTGTTCTAATTTTCAGTTTCCCTTCAGAGCTCATGTTGAGAATTTTTGTGGTTAGTTCCATGGAGCCCTGATTCCTCGTGGGTCAGTTCAAGCTCTCATGTAGAGAACAGCTGTGAGAATTGCACTGATTTTTTACAAGCATTCATGTTAGAAGCCACAAGACTCTATCTCTTCCATGGGAATTCAGGATGCGTTCAGGGCAGATCATGAAAATTGTCTGAAGGCGCTTACGGGTTCTTGTTTGGTGGGGCACAGGTTTCCTCCCAGAGAGAGAAATCACATAACTGCTAATCTGGAACGCACTTGACACACACCTGTGCCATGAAGGGCTGCTCAGACCTCGGTTTACCCCAGTCCCCAGGACAGCACGGGGCTCCACTGCACAGTGTTTCTGTCCCCATGTGGCTCGGGAGTAACAGTGAAATGTGACTGGCCTGTGGGCATCCAGTTAGCAAAGGACAGAGCCGGGATTCAAACCCCAGTTCTGAATGCTGCATAACCTTTATCTACTTAGAAGAAAAATCTAAGCTCTCCTTATGGATCTTAAGGCCTTTCACCCCTCACTCCCAAATTACCTCACTGCCTTTCCCCATATCCACCCAAGCTGCTGAGGACAATCTCCCCTCTTTATTATCCTTCCAAAGCATTTGTCACCATTCTTGGTTTGTGTCTGAAACAGCCCTCCTGTTCAGCGAAGTCAGCAAGCTCCCTATGTCACCCCTCAGAGAGCTCTTGAAAGCACATCGTAAGAAACTTCCCTTAAGGTAGAAATTCCATTTCCCTCTAAGATTGATGTGTGACACCAAAAACCCTGGCATAATGTTTACGCACAATATACGTGTTTACTGTACGGGTTTGATACTGGTATCCAAGAGTTTGTGGAACAGTGTGTCCCTATAACATGTCTTTCCTGGTAGTAGAATCTGTTTCATTCTTCAGACCCATAGAAACAGCCTTTCTTTTTCTGTATTGATAGATAAGGAAAATGAGAGAAGCTAAGATTTATAGAACATACTCAGTGCCAGAAATGGTGCTGGGCACTTTACGCCCATGATGCTGTTTTAGAAGAAATGAGATGTTATAGGTGTAATTGTCCATGGTCACATGGCAAGAGGGGGTGGCCCTGGCATTCAGATTCACATCTGTGACATCAAAGCCCTGGCCCTCTCCCCTCTGCATGCTGCATGGCTTCCTTCATGGGACAGGGAACAGAAGGATTAAAAGGAGGAAGACAAGAGGGAAGGGGTGGGACCCCTTTCAAACAGAGCACAGAGCTAACTCACCCTTCGCAATGAGCTTTTTAGTATCTCAGCCATTGAAACAACCGGGGACCATGTTCTTCAGGTCTCAGGTATCTCTGGCATTTACTAGAAGCCCTTGCAAATAGCAACCACAACAATAAAGTCAGAGTTCTTGTTAAAGCTTTCCCCTGCAACAGCTGTTTGAACGCTGCTCTGGCAGCCTTCCCTGGAGAGGCTGCTGGTTGAAAGCTGGAAGGGAGTGGTTGCAGAAAATGAGAAAAGGATTCAAGGATGGAGAAGGCCAGGGCATCCCAACCAAAGGCTTGAAGAGCTTCATAACCCTTCATTCATAATCCCCTGGAAAGTCTCTTATGAACCAACTTGAAGCCTTGGTCTCCCTGGTGAAGAAATCAGTGCCCTACAAAACAGAGGCCATGCTCAGTAACTCAGCATGCATCACAGTGAAAAGAGCACTGCCACAGCTGAGCTCTGGGTCGGGCTGAATGGAGAAACCATCTTCCGGCCAAGGAGTCTAAGAGCTCTTCCCAGAAGATCTCAGAAAAGTTACATGACTCAGTTAGTATGTAACTGTGAGTGAGTCAGATAAATTCAGAGAGAAAACCCAGGGTTCTTTGTCCTCAGCAATTTAAAATGTGCTGAAGAGAAGTCTGGAAAGAGAGCTTGCTGAGTTTTCCCGTCAGCTGTGCCACTGATTCACCCCTTTTGCTTGCCTAAGTTTTATTCTTCTTGGATTTGAATTTCTCTGAAGAATCAGACAGTACTTTCATTCAGAGAGCTTGTAACTAGGCCTGATACATGTCCAGAGTGCTCACTACCTGCCCCCACAATGTCCACACCCACATTCCCGAATCCTCCAGACTTTTCCAGGACCTCTCAGCTGCAGGCCACCTTTCTCTCTCAGAGTTGCCTCACACACAGATGGGCCTCGTTCACAGCCTCATTCCTTCCTGCCAAGGTTATAGTTATATCTGGTCTTCCCTACTAGACTGTAACTCCCTCAGGTGCAGGGGTCCTCTCCTGTCTGTATCACCGCAGCACCCAGTTACGTAATGGTTTAGTTGCTAAGTCATGTCTGACTCTTGTGACCCTGTGGACTGTGGCCCACCAGGCTCCTCTGTCCATGGAATTTTCCAGGCAAGAAGCATACTGGAGTGGGTTGCCATTTCCTTCTCCAGGGGATCTTCCTGACCCAGGGATCAAACTCGAGTCTCCTGCATTGCGAGCCATCTCCTCCATTGCAGGCAGATTCTTTACCAACTGAGCCACCAGGGGAAGCCCAAAATAATAGTGCTGAAAAACATTTGTTGAATGAGGAAACATAATTTTATACTAAGAACCATAGTATCTTAGCATTTTTGGATAATCTAAGGGGTTGTGTAACTGGCCTTCTTTCTCCAACACATTCTTTTTTGTTGTTGTTGGGGGTTTGTTTGTTTTTTTCAACTTTTTATTTTGTATTGAGGTATAGCCAATCAACAGTGTTGTGATAATTTCAGGTAAACAGCGAAGGGACTTAGCCATACATATATATGTATCCATTCTCCCCCAAACTCCCCTCCCATCCAGGCTGTCACATGATACTGAGGAGAATTCCATGTGCTATAGAGTAGGTCCTTGTTGGCTATCCATTTTAAATACAGCAGCACCAACACATTGTTTTTTAAATACCCTGTAACTACAGGAACGACTTCCCTGGTGGCTTAGTGGTAAAGAATCTGCCTGCCAAGCGGTAGACAATTAAACAACAACAAAAAGCTACGATCACTACTTCTCCAGGCGGCCCGTCCACTGGTAGACAGATGTCCGCTGACAGAGGCACCAGGAACCCGCCTGCTTTTAACTCCGCGCCGTGGGTGGTGATCCCAGTGTCCCCCTCTCCCACATGCAAGTCTTTCATACACTTCAGCAACTACTGGTGACCTTCCGCCTCTGCGTACATTCCGCTGTATCTGTCTCACTCTTAAATTATGCTGTGGTTTTCTTGGGGCTAAAGGTTTGCATTCTCTGAAAAATTGATCATGGGTAAGACTTTAGGAAAAAGAGAGAAATTAATTCTAGAGAAGAATCTTGGTCAATTTAATATCAGTATATTCAATTGCATTTTGCCATTTGTTCCCAAATTTATAATTCCGGTCTGGCCCTCTCTCTAAACCCCAGAGCAGTCTATAGTCAGCACGTTCACTTGGATATCTGATGACATCTCAAAAGCAGCTCTTGATCTTCCCCTCAAACCTCATCCACCTGTGATCTTCCCCATCTCAGTTAATTGAGGCTCCACCCTTCCAGTTGCCTAAGCCCAAATTTTGGCCCATTCTTGATTCTCCTCTTTTTCATACATCCCTCATCAGAAAATCCTCTGGACTCTGCCCTCAAAATATGCCCAGAATTCGGCAACTTCTTATCACCTTCACTGCACCACATGGTCATTCTTCACCTGGGTGTGTGTAATTAGGACCCGAGCCATCTTTCCGGTTTTACTCTTGCCCTTCCATAGCCTGTTCCCTACATGGCAGCCAGAGGAGTGACGTGAAAAATGTATGTCAGATTATGACCCTCCCTCGTGTAGAAGCTTCCCATTTCTCTCTGTAAATGCTGTGCTCTTAAACTAGCCACAGCCCATGCCGCGATGAAGCACCCTCTTACCTCTCTGACCTCACCCCCTTCTCCCCTCCTTGCTTGGGCTCCTGCAGCCACACTTGGTTCCTGGCTTTTCCTCAAACATCACAGGCACACTGTCCCCCTCAGGCCCTTTGCACGGCTGTTTCTTTGCAAGGCTTCTCTCTGCATGGAACCATCTTCACCCAGATCTCCATGGAGTTCATTCCCTCGCTCCCTCCAAGTCTGTACTCAAGATCTTTTTCTCATTAAGGCCTATCCTGACCGTCCCATGTAATACTGCACCCTCTCAGCCCTCCCAGTGTTTCTTATCCTGCTGATTTTTTCCATAGGAATCATTCTGATCTCGTAAAAAGTCTAAGATAGGCTGTTCATTGTTTATCGTCTGTTGCCTCCAGTAGAAAGTAAGCTGTCTGTGAGCAGGGAATTTTGCTTGTTTGCTAGGCCACCAACACTGTCCTTAATTTCATACTATCTCAGGATTCTCCTTATAAAGATTAGCTGTAGAAGTTAAAAGGAAACTGTTACTCTTTTTTTCAATTTCCAGAATACTATAGTTTCAAATAGTCCAATCATAAAATCTATAGCCAAGTAAAAACTAGTAGTTTTCTATAGTAAATGGAATTTTCTTCTCTTAGTTTTAGAAATTAGATGATTGGATTTCAGTATCTGAGGTGTGACAGCTGTTACGTATTGGCACTTTGAACCTTGACGTCCCAAGGTTCAAAGGCTGTGCGTTATTTATTATAGCAAAAGGCAAACAGCACATCCTTTATTGCTGAGAAATAAACCAAGAACTCTGAGGAAACTTTGGGCAGAAATTGTAAAATGGCTAAAGTTTCTTTGAATTAAAAAACTTTAATCAGTGTAAAATTTACCACATCTGCTCTGCCAATCCTAGAAACTTTTCACACTGATCTTATTTTAGTTTTTACCTGACTCCAGTACATTGCCATTAAATTAGTTTTATAAATTAGAAAGGATTCTTGGGCTTGTGTCTTAAACATTATATTCTGGTTAGATGTGGACTTCCAGCATTTCAAGGCTGCTAGCCAACATTTCAAGGCAGTTGCCCTGACACCCAACATTTAAAGGTGCCCCATCTTCCTCATGTTTGGGTTGAAGCAGGAATGTGCTGTGGTTCTCTTTCTGAGAACACAAAATTCCAAAGATATCTATTGTTTCTGAATATGGAAGTAACTGATGGATTAAATGCACTCTGTGACCTGAAAGGAATGTGACTTTTTGGCCAACAGAGAACTAAAATATCTAAATGAAGATGCTGAAAGGAGATTTTCAAAATATTTTGAACAGTGCAGCATGGCTTCAGTATGTCTGTAGTGTTCAAAGATGACCTCGTTTGCATATATGTTTTTATCCTTCCATACATGTGTCTTGAGTTTTTTAAAGTTACATCCTATATATCCAATATCCAGTTTTCATAGTTAACAGACCCCAGGACCCTCAAGTTGAAAACACTGGGTACCCTCCCCAGAAGTCCAAGGAAATGGACTTGCCACATGGACACTAACCTTGTGGAAGTCTGAGACTTGAACCTTAAAAATTATTTTCCAAGGCCATGAACAGTGACCTTGTCAGTTTCAGAAGATCACCATAATAATAGAATTAAATGAGCCATTTGTACCAGTTGTCTGTTAAAGTTTCTCTCCTTGGTATTCATCTTGCTGTTACAG
Seq C2 exon
AAATTATGGATCCTGATGAGCAATTAGAAACCCTTCACGAAGCACTGAAACTGCTGCCGCCTGCTCACTGCGAAACCCTCCGGTACCTCATGGCGCATCTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008028:ENSBTAT00000010556:12
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:
PF0062022=RhoGAP=FE(29.9=100)
A:
NA
C2:
PF0062022=RhoGAP=FE(22.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]