Sequence
atgc intronic sequence ATGC exonic sequence...tcaagttgttacttattcattgaataatgtgtgaatttattgcctcattcaactcgtgatacatttttgtaatggtgattcttgtctctgttttgtgcagCTCTGGAGCTTATAGAACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT
Basic information
species | Glycine max |
transcript | GLYMA04G43650.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G43650.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G22800.1 (Arabidopsis thaliana), 3'ss of exon 8
tcaagttgttacttattcattgaataatgtgtgaatttattgcctcattcaactcgtgatacatttttgtaatggtgattcttgtctctgtttt---gtgcagCTCTGGAGCTTATAGAACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT-----------------------------------
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gtaaactgttcc--acttttttcctacttcatcg-tttgcaacaacgtgtatcttccaagaattatttctgatttgccttctcgtttatatctttctactcagCGATGGATCTTATAGAGCATCTTCGTGCGATGGGTGAAACCAATGCTCTTCTCGAGAGAAACAAGATTTTGAATCGTGAAACTGCTGTTGCCACGGCAGC
upper sequence: GLYMA04G43650.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 8
tcaagttgttacttattcattgaataatgtgtgaatttattgcctcattcaactcgtgatacatttttgtaatggtgattcttgtctctgttt-tgtgcagCTCTGGAGCTTATAGAACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT
| | || ||| |||| ||| | | | || ||| | |||| | | || | | || | | || | | | | || |||||| || || ||||||||||| ||| ||||||||||||| ||||||||| || | | ||||
tgtaattatta-ttatatattaacttagaatataagttaaaaataaaatcaatgcatcttaattacctttatgtctcacatgtgcttttaactgtatgtagCTCTTGACCTAATAGAACATCTGCGTTCAATGGGTGAAACTAATGCTCTTCTACAGAAAAGCAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcaactcgtgatacatttttgtaatggtgattcttgtctctgttttgtgcagCTCTGGAGCTTATAGAACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT
ttcttgtctctgtttt CT-rich tract
atacatttttgtaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaagttgttacttattcattgaataatgtgtgaatttattgcctcattcaactcgtgatacatttttgtaatggtgattcttgtctctgttttgtgcagCTCTGGAGCTTATAGAACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT
- - - - - - - - - - - - - -tgtgtga
- - - - - - - - - - - - - - - - - - - - tgcctca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggtg