Sequence
atgc intronic sequence ATGC exonic sequencegtccgtatgaccacattcgctagtggtttctgttatctcaattttccaggataataataccttcagtttttacagGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os10g27230.2 (Oryza sativa), 3'ss of exon 7
gtccgtatgaccacattc-------gctagtggtttctgttatctcaattttccaggataataataccttcagtttttacagGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
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gtctgtgccatcacattttctttatgctagttttgtgtaacatcttagaatttcagattgacactgtat--ggcttttgcagGTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG
upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G15980.2 (Glycine max), 3'ss of exon 7
gtccgtatgaccacattcgctagtggtttctgttatctcaattt-tccaggataataataccttcagtttttac-------agGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
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----gta-aattattttctttagtttgttcgtatgcatcaaattgttctgaacattacagtttctaattttctcctattttagGTTCATACTCTCTTAAAAGGTTTGGAAAAAATAGCTGCAAGTGCAGACATTCCGATGTTGGTTTGTGGAGATTTTAATTCAGTTCCGGGAAG
upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G26620.1 (Glycine max), 3'ss of exon 7
gtccgtatgaccacattcgctag-tggtttctgttatctcaattttccaggataataataccttcagtttttacagGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
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----gtttgttcatatgcatcagattgttttgaacattacaatttc------taat-----tttctcctattatagGTTCATACTCTCTTAAAAGGGTTGGAAAAAATAGCTGCAAGCGCAGACATTCCGATGTTGGTTTGTGGAGATTTTAATTCAGTTCCAGGAAG
upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA19G39210.1 (Glycine max), 3'ss of exon 7
------------gtccgtatgaccacattcgctagtggtttctgttatctcaattttccaggataataataccttcagtttttacagGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
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gtaagtcgttcgctttgtttgttcatattgaacagtg-tgcttat--tttgaacatgacag--ttataaatttccccttctttttagGTGCACACTCTCTTGAAAGGATTGGAGAAAATTGCTGCCAGTGCAGACATTCCAATGTTGGTTTGTGGGGACTTTAATTCAATTCCAGGAAG
upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv08s0007g07020.t01 (Vitis vinifera), 3'ss of exon 7
---------------------------------------gtccgtatgaccacattcgctagtggtttctgttatctcaatt-ttccaggata-ataataccttcagtttttacagGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
| | | | | | ||| || | || |||| || | || | || ||| | | || | ||||||||||| ||||||||||| ||||| || ||||||| ||| ||||||||||| ||| |||| ||||| ||||| || || ||||| ||
gtaattaattttattttatttttgagtgagcttgagtggggctttttttatgcgtgtgcttatg-tctcagttaatcaaactattttattatgtatattcttgtttgtcatatcagGTTCATACTCTCTTAAAAGGTTTGGAAAAAATAGCTGCCAGTGCAGACATTCCCATGCTGGTTTGTGGCGATTTTAATTCAGTTCCTGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtggtttctgttatctcaattttccaggataataataccttcagtttttacagGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
tttttac CT-rich tract
ataataata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccgtatgaccacattcgctagtggtttctgttatctcaattttccaggataataataccttcagtttttacagGTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT