Sequence
atgc intronic sequence ATGC exonic sequencegtagtgctattattttctcaagtgatcatgtcaagcttgcttcttgtaccctatgacttctaaagatatttttttctcaaactaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g58130.1 (Oryza sativa), 3'ss of exon 7
gtagtgctattattttctcaagtgat--catgtcaagcttgcttcttgtaccctatgacttctaaagatatttttttctcaaactaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
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gtatggtcattactttctcatgttacagcatggcaa-caaatttctt---ctccatgtttcctagagataaacttctcttaatctaagcagGTTTTCTCTTGGGAACCAATAAGATGTCATGATACCGTTGATGTGGGATGGTCTAGACTGTCTGATCTAAATGTCCACGAGGGAAAACTTCTTGGTTGTT
upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 8
gtagtgctattattttctcaagtgatcatgtcaagcttgcttcttgtaccctatgacttctaaagat----atttttttctcaaa-ctaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
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-----------------gtaag-gcccatttttagttgatttatttaaggtaatcatttatcaaggtgacgatgctctgcttggttctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATTTTCATGAAGGAAAACTTCTTGGCTGCT
upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 8
gtagtgctattattttctcaagtgatcatgtcaagcttgcttcttgtaccctatgacttctaaagatatttttttctcaaactaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
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---gtaa-gccctgtttttagttgatttatttaaggttatcatttat----caagg----taacgatgttctgct-tgattctgtttagGTTTTCTCTTGGGAACCTATAAGATGCCATGATATGGTGGATGTGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCT
upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 7
lower sequence: AT5G08390.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------------------gtagtgctattattttctcaagtgatcatg-tcaagcttgcttcttgtaccct----atgacttctaaagatatttttttctcaaact-------aa---gcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
|| | | || | | | || | | | ||| || ||| || || || | | || ||| ||||| |||| || | || ||||||| ||||||||||||||||| |||||| || ||||| |||||||| | | | ||| ||||||| ||||||||||| ||||| ||||| |
gtaagttcttcaggatgtcccagttagaaatatatgaacttaacaaattcctcttttaaggatataacacttacacttactccttttaatctgaatatacatgtttgctatcctttcttctctaacttccatgcaaattgtagATTTTCTCATGGGAGCCAATAAGATGTCATGATGGAGTGGATGTTGGATGGTCAAACTTGTCGGATATGAATGTTCACGAGGGAAAGCTTCTCGGTTGCT
upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 7
lower sequence: AT5G23430.2 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------------------------------------------------------------gtagtgctattattttctcaagtgatcatgtcaagcttgcttcttgtacccta---tgacttctaaagatatttttttctcaaactaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
| || || | ||| |||| || | | | | || | || | ||| || | | | | |||| | || ||||||| ||||||||||| ||||| |||||| || ||||| |||||||| ||| | | ||| ||||||| ||||||||||| ||||||||||| |
gtaaattcttctatactttgatatgcagtatgtagattcttaaattagatatatgttaattgaacaactcatcttttgaaggattcgttcttatgtttactcatttgctttcaaaatacacattcctactcttcttacctcactcctttggtttaatcctgtgcaaatc--gtagATTTTCTCATGGGAGCCAATTAGATGTCATGATGGAGTGGATGTTGGATGGTCAAGATTGTCAGATATGAATGTTCACGAGGGAAAGCTTCTTGGTTGCT
upper sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 7
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 7
---------gtagtgctattattttctcaagtgatcatgtcaagcttgcttcttgtaccctatgacttctaaagatatttttttctcaaactaagc-----agGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
| ||| | ||||| | | ||| | | | | | ||| |||| | | | |||||| | | ||||||| || ||||| |||||||||||||||||| |||| |||||||| ||||||||| | | ||| | || | || |||||||| || || || || |
gtacgcccttttgtgtt-ttattatattaagaccctactctggattatatgaagacattccatgttcactaatttttactcaatttcaaacgatactttatagGTTTTTTCATGGGAACCAATAAGATGCCATGATGCTGTGGATGTGGGGTGGTCTAGATTATCAGATCTTAACATTCATGAGGGAAAGCTCCTGGGCTGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttgcttcttgtaccctatgacttctaaagatatttttttctcaaactaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
ttctaaa putative branch site (score: 2)
taaagatatttttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgctattattttctcaagtgatcatgtcaagcttgcttcttgtaccctatgacttctaaagatatttttttctcaaactaagcagGTTTTCTCCTGGGAGCCAATAAGATGCCATGATACTGTCGATGTGGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT