Sequence
atgc intronic sequence ATGC exonic sequence...aacacttttgtgcctggtgtgtttagtttggtgtgtttgcaaagttttatggtgttgcatttctgttcaaagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 3'ss of exon 5
aacacttttgtgcctggtgtgtttagtttggtgtgtttgcaaagttttatggtgttgcatttctgttcaaagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
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------------------gtatgtaattttctgtgt----agagtagtatgcggtttattttct---caggttcatggcttatttgtttactgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATTTCAAGAGTGGACAGACAAAGATGAAGTCTGTCTTGGTTGATTTCCTAGT
upper sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
aacacttttgtgcctggtgtgtttagtttggtgtgtttgcaaagttttatggtgtt-gcatttctgttca---aagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
| | || || || ||| | | ||| |||| | |||| || | | || | | | |||||| ||| |||||||||||||||||| ||| || ||| |||| ||||| || |||||||||||||| |||||||| |||||||| || | ||||| || || ||
-------------gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgt-tgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
upper sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G31450.2 (Glycine max), 3'ss of exon 5
aacacttttgtgcctggtgtgtttagtttggtgtgtttgcaaagttttatggtgttgcatttctgttcaaagacttattatacgtgttgcatgtttgt-agGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
|| | || | | | || ||| ||| ||| |||||| | |||| | || | | | | | ||| | || || ||||||||||||||| || ||||||| ||| | |||| || || || ||||| |||||||| |||||||| |||||||| || | || || ||||| ||
-----gttcattattgattattattattatgtgggttattaaa-ttttat--ttatgcaaaataaataaattggtgaattt-tgctttgtgttttcgtcagGGCTGATTGATCTGGCCATCAAGAGGAACAGTTTGATTGGAGGAGATGACTTTAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTGGATTTCCTTGT
upper sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT4G39800.1 (Arabidopsis thaliana), 3'ss of exon 5
aacacttttgtgcctggtgt-gtttagtttggtgtgtttgcaaagttttatggtgttgcatttctgttcaaagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
| | ||| ||| ||||| | | | | ||| | || | |||| ||| | | || | | ||||||| || |||||| | || |||| |||||| |||||||||| || || ||||||||||| || |||||||||||||| ||| | ||||| ||||||||
-----------gtttcatgtagttgagttttaatcactcattga-tcaatcaatattggaaatc------atgactgatttt-cttgggggtttgttgtagGTCTAATTGATATGGCGATCAGGAACAATGTTTTGATCGGTGGAGATGATTTCAAGAGTGGTCAAACCAAGATGAAATCTGTCTTGGTTGATTTCCTAGT
upper sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT5G10170.1 (Arabidopsis thaliana), 3'ss of exon 5
aacacttttgtgcctggtgtgtttagtttgg--tgtgtttgcaaagtttta-tggtgttgcatttctgttcaaagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
|| || || | | | | | ||| ||| || || |||| | | | ||| | | || || | | |||||| ||||| | || || |||| |||||| ||||||||||||| |||||||||||||| |||||||||||||| || ||||| || || ||||| ||
------------------gtaactaaattaaactatatctagatagtattaatgaccttcaattttctatagtaatcacattttgc---ttatat-tatacagGGCTTATTGAATTAGCCATAAAGAGAAACTGCTTGATCGGTGGTGATGACTTCAAGAGTGGTCAGACCAAGATGAAGTCTGTCCTCGTCGATTTCCTTGT
upper sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S55_204V6.1 (Physcomitrella patens), 3'ss of exon 4
aacacttttgtgcctggtgtgtttagtttggtgtgtttgcaaagttttatggtgttgcatttctgttcaaagacttattatacgt--gttgca-------tgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
|| | | |||| |||| ||| | | | | || || ||| || | || ||| | || ||| || || ||| ||| | ||||| ||| | | || |||| | || |||||||||||||||||||| || || || ||||||||||| || ||||| || || |||||
---------gtacagaattggttttttttgagaggttcgtgttgcataagagtaccgcttttaaattagagagctgattcgaagttggtttcaaatgcggtggttgcagGAGTAATTGAATACGCTGTTGAAAAGAACTCATTAATTGGTGGTGACGACTTCAAGAGCGGTCAAACGAAGATGAAATCCGTTCTAGTGGACTTTCTAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatggtgttgcatttctgttcaaagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
aaagacttattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacacttttgtgcctggtgtgtttagtttggtgtgtttgcaaagttttatggtgttgcatttctgttcaaagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - cctggtg
- - - - - - - - - - - - - tttggtg
- - - - - - - - - - - - - - - - -tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - -gtgttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - tgttgca