Sequence
atgc intronic sequence ATGC exonic sequencegtaagacagtagatcatgcttttttgaatattatatatataatctgtatatttcatcataaactgagaatttatattgtttcagTAACATATACTACATAAATGACAATCTGGACAAAAGAACTTGGACTTACATCTTTGGCGCATGCTGTGCAACAACAGTCTTCATCCCTTCTTTCCACAAT
Basic information
species | Glycine max |
transcript | GLYMA04G43150.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G43150.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagacagtagatcatgcttttttgaatattatatatataatctgtatat-ttcatcataaactgagaatttatattgttt-cagTAACATATACTACATAAATGACAATCTGGACAAAAGAACTTGGACTTACATCTTTGGCGCATGCTGTGCAACAACAGTCTTCATCCCTTCTTTCCACAAT
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gtaaattaataatcaatgttcattt---tctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcagCAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACATATTTGGGGCGTGCTGTGCAACAACTGTTTTTATTCCTTCCTTCCACAAT
upper sequence: GLYMA04G43150.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g03540.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------gtaagacagtagatcatgctttt--ttgaata----------ttatatatataatctgtatatttcatcataaactgagaatttatattgtttcagTAACATATACTACATAAATGACAATCTGGACAAAAGAACTTGGACTTACATCTTTGGCGCATGCTGTGCAACAACAGTCTTCATCCCTTCTTTCCACAAT
| | | ||| || || || | ||| | | | || |||| | ||| || || || | || | | || |||| | | ||| ||||| |||||||||||||||||| | ||||| ||||||||||| |||||||| ||||| |||||||| || || || ||||| ||||| ||||| |||
gtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttcca-ttgatat-gctgcagCAACATCTACTACATAAATGACAATTTCGACAAGAGAACTTGGACGTACATCTTCGGCGCCTGCTGTGCTACGACCGTTTTCATTCCTTCATTCCATAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatatatataatctgtatatttcatcataaactgagaatttatattgtttcagTAACATATACTACATAAATGACAATCTGGACAAAAGAACTTGGACTTACATCTTTGGCGCATGCTGTGCAACAACAGTCTTCATCCCTTCTTTCCACAAT
ttgtttc CT-rich tract
atatataatctgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagacagtagatcatgcttttttgaatattatatatataatctgtatatttcatcataaactgagaatttatattgtttcagTAACATATACTACATAAATGACAATCTGGACAAAAGAACTTGGACTTACATCTTTGGCGCATGCTGTGCAACAACAGTCTTCATCCCTTCTTTCCACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG