Sequence
atgc intronic sequence ATGC exonic sequence...aatgtctttgtattctcattttgtataccgttatgtaatgtgacaataacaataacttaatctatgtttctttatatttaagcttagatttttgtgacagTTGTTTTGCGCATGATAAGCTTTGGATTCGATTTTCACTGGAGTAATCAAGATTCTCACTTTGATAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA20G25100.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G25100.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 6
aatgtctttgtattctcattttgtataccgttatgtaatgtgacaataacaataacttaatctatgtttctttatatt-taagcttagatttttgtgacagTTGTTTTGCGCATGATAAGCTTTGGATTCGATTTTCACTGGAGTAATCAAGATTCTCACTTTGATAAGGAG
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-gtattgttttatccac----tctacacttgactgcaatttt-ctatgtgaaaaacacaatctg-gctggagtatgttgttcatttataattttgttgcagTTGTTTTGCGCATGTTAAGTTTTGGATATGATTATCACTGGAGCCAACTGGATTCTCATTTTGATCAGGAG
upper sequence: GLYMA20G25100.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0507g00010.t01 (Vitis vinifera), 3'ss of exon 6
aatgtctttgtattctcattttgtataccgttatgtaatgtgacaataacaataacttaatctat-gtttctttatatttaagcttagattttt-----gtgacagTTGTTTTGCGCATGATAAGCTTTGGATTCGATTTTCACTGGAGTAATCAAGATTCTCACTTTGATAAGGAG------------------
| || || || ||||| | ||| || | |||| | | || | | |||| || | || | || ||| | |||||||| |||||||||||||||||||||||| ||||| || ||| || |||||||||| |||||| || ||
---gctaaagtttttccaaattgtaaat--ttagagaaca-aaaaatattacttctctagacggttgttttttcaagcttggtttcaggtttattttgtatgacagTTATTTTGCGCATGATAAGCTTTGGATATGATTTCCATTGGGCACATGAAGATTCTCATTTTGATCAGAAGGTATTCATTTTTCTGTGA
upper sequence: GLYMA20G25100.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0559g00010.t01 (Vitis vinifera), 3'ss of exon 9
aatgtctttgtattctcattttgtataccgttatgtaatgtgacaataacaataacttaatcta--tgtttctttatatttaagcttagattttt-----gtgacagTTGTTTTGCGCATGATAAGCTTTGGATTCGATTTTCACTGGAGTAATCAAGATTCTCACTTTGATAAGGAG------------------
|| || ||| || ||||| | | | | ||| | || || || | ||||| | | | | | || ||| | |||||||| |||||||||||||||||||||||| ||||| || ||| ||||||||||||| |||||| || ||
--tg-ctaaagatttccaaattgtaaattg----agagaacggcaaatattatttctctatatggttgtttttccaagtctggtttcaggtttattttgtatgacagTTATTTTGCGCATGATAAGCTTTGGATATGATTTCCATTGGGCACATCAAGATTCTCATTTTGATCAGAAGATATTCTTTTTTCTGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataacaataacttaatctatgtttctttatatttaagcttagatttttgtgacagTTGTTTTGCGCATGATAAGCTTTGGATTCGATTTTCACTGGAGTAATCAAGATTCTCACTTTGATAAGGAG
tttttgt CT-rich tract
aataacttaatctatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgtctttgtattctcattttgtataccgttatgtaatgtgacaataacaataacttaatctatgtttctttatatttaagcttagatttttgtgacagTTGTTTTGCGCATGATAAGCTTTGGATTCGATTTTCACTGGAGTAATCAAGATTCTCACTTTGATAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- -gtctttg