Sequence
atgc intronic sequence ATGC exonic sequence...atgaattgtttgaattatgatatcctttatattgtgtcactatattacttaagcattgattatagactaatttttttttaccatctcatgtgttctacagAGCACATCTCGTGAAGCCAAACGTTTGGATGCCATTACCAGATCTCCTGTTTATGCACAATTTGCAGAAGCATTCAATGGTTTATCAACCATTCGTGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G46940.1 (Glycine max), 3'ss of exon 24
-------atgaattgtttgaattatgatatcctttatattgtgtcactatattacttaagcattgattatagactaatttttttttaccatctcatgtgttctacagAGCACATCTCGTGAAGCCAAACGTTTGGATGCCATTACCAGATCTCCTGTTTATGCACAATTTGCAGAAGCATTCAATGGTTTATCAACCATTCGTGCAT
| ||| ||| | ||| ||| || || |||||| || ||| | || || | | |||| ||| | | | || | ||||||||| |||| || | || || ||||| ||||||| |||||||||||||||||||| |||| ||| || | || ||||| |||| |||||||||||
ttctggaaagaaacaccagaaaagtt-tattatttttaagttggcactatgttgt-----catggtttgaggaattgatcttttctactaacatct-tgccttgcagAGCACAGCTCGAGAGGTAAAGCGCATGGATTCCATTACAAGATCTCCTGTTTATGCACATTTTGGTGAATCACTGAACGGTTTGTCAAGCATTCGTGCAT
upper sequence: Vv10s0003g04460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G30410.1 (Arabidopsis thaliana), 3'ss of exon 24
atgaattgtttgaattatgatatcctttatattgtgtcactatattacttaagcattgattatagactaatttttttttaccatctcatgtgttctacagAGCACATCTCGTGAAGCCAAACGTTTGGATGCCATTACCAGATCTCCTGTTTATGCACAATTTGCAGAAGCATTCAATGGTTTATCAACCATTCGTGCAT
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-gtaattttctaattcggggcaatgtcagatacatg-cacaat-tgattttaagatatatggtccacttggaattaat-atcacttc-tgtgatttgtagAGCACATCTCGTGAAGTTAGACGTTTGGATTCCGTTACAAGATCGCCTATTTATGCTCAGTTTGGAGAAGCTTTAAATGGTTTGTCAAGCATCCGAGCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacttaagcattgattatagactaatttttttttaccatctcatgtgttctacagAGCACATCTCGTGAAGCCAAACGTTTGGATGCCATTACCAGATCTCCTGTTTATGCACAATTTGCAGAAGCATTCAATGGTTTATCAACCATTCGTGCAT
gactaat putative branch site (score: 2)
attgattatagactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaattgtttgaattatgatatcctttatattgtgtcactatattacttaagcattgattatagactaatttttttttaccatctcatgtgttctacagAGCACATCTCGTGAAGCCAAACGTTTGGATGCCATTACCAGATCTCCTGTTTATGCACAATTTGCAGAAGCATTCAATGGTTTATCAACCATTCGTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - ttaagca