Sequence
atgc intronic sequence ATGC exonic sequence...ttctttcatttcaatcatccataagcatgcccatattttcccctattcatctggattatatacttaggttcttgataaattttttcatgctaatatatagGATCCTGAGAATCTTGATGGAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02070.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G302233_T01 (Zea mays), 3'ss of exon 6
ttctttcatttcaatcatccataagcatgcccatattttcccctattcatctggattatatacttaggttcttg--ataaattttttcatgctaatatatagGATCCTGAGAATCTTGATGGAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG
|||| || || |||| | | || || | | || | || | | | ||| | ||||| | ||||| | | ||| || |||| | ||| ||||| | |||||||| ||||| ||||| ||| |||||||||| ||||||||||||||| | ||||| || ||||
-tcttgaatatctgacatcactttctttttttattttctatgtgaagatacttcaatactttgtcaatttcatagcataaagtaactcatgggtac-tgcagGTATTGGATGCCGTTGAAGAAGAGAAAAATAAGGTTCCTGCTATTGCCATTGTGGGAAGACCAAATGTGGGTAAAAGTAGCATTCTAAATGCTTTGGTTG
upper sequence: Vv06s0004g02070.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G14170.1 (Glycine max), 3'ss of exon 3
-----ttctttcatttcaatcatccataagcatgcccatattttcccctattcatctggattatatacttaggttcttgataaattttttcatgctaatatatagGATCCTGAGAATCTTGATGGAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG
| ||| | | | | | ||| | | || | || |||| | | || || || | || | |||||| |||||| ||||| | || | ||||||| || |||||| |||||||||| |||||| |||||||||| ||||||||||||| ||||||||||||||||||||| | ||||
tcaaaatgaatcacta-actaactcctaactaactaactgaattacaacatacatc---aacagatttttcattttataatttactttttc-tgctaaactatagAAATCTAATAATCTTGTTGAAGAAGAGGATTATGTTCCGGCAATTTCAATTGTTGGTAGACCAAATGTTGGCAAAAGTAGCATTTTGAATGCACTTGTTG
upper sequence: Vv06s0004g02070.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G06150.1 (Glycine max), 3'ss of exon 6
-ttctttcatttcaatcatccataagcatgcccatattttcccctattcatctggattatatacttaggttcttgataaattttttcatgctaatatatagGATCCTGAGAATCTTGATGGAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG---
|| || |||| | | || | || | | |||| || | || | | || || |||| || || |||||| ||||||| || | ||||||| || |||||| ||||||||| |||||| |||||||||| |||| |||||||| ||||||||||||||||||||| | ||||
attattcttgttcactgtacaatttggatcaacttgttttaattcatcttttgagacccttcatttttcaattt-ataatttactttctgctaacctatagGAATCTAATAATCTTGTTGAAGAAGA---TTATGTTCCAGCAATTTCAATTGTTGGTAGACCTAATGTTGGCAAAAGTAGCATTTTGAATGCACTGGTTGGTG
upper sequence: Vv06s0004g02070.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G12080.2 (Arabidopsis thaliana), 3'ss of exon 6
-ttctttcatttcaatcatccataagcatgcccatattttcccctattcatctggattatatacttaggttcttgataaattttttcatgctaatatatagGATCCTGAGAATCTTGATG------GAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG
| || | | || || ||| |||| | || || | | || ||| | ||| | | || ||| | | ||| ||||| |||| | ||||||||| || ||||||| ||||||||| |||| || ||||||||||| |||||||||||||| ||||||
tagcattgacaactatgttcaataggcatcactttacaaaccaaatattaaaacattttcttacatctgttgcacccatacgattcaatgacttt-tctagATCATGGAGAACATTGAAGAGGAGGAAGAAGAAAACTACATTCCTGCCATTGCAATTATTGGTCGGCCAAATGTTGGCAAAAGTAGCATTTTAAATGCAC------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatctggattatatacttaggttcttgataaattttttcatgctaatatatagGATCCTGAGAATCTTGATGGAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG
tgctaat putative branch site (score: 2)
ttgataaattttttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctttcatttcaatcatccataagcatgcccatattttcccctattcatctggattatatacttaggttcttgataaattttttcatgctaatatatagGATCCTGAGAATCTTGATGGAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG
- - - - - - - tcatcca
- - - - - - - - - - - - -catgccc
- - - - - - - - - - - - - - - - - - -ttcccct