Sequence
atgc intronic sequence ATGC exonic sequence...aatttatggaagctatgagaagtggtgtggatggcatggatcgtgttactcaactattttaaaattttatctgctatttatttttttttatctttgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 4
aatttatggaagctatgagaagtggtgtggatggcatggatcgtgttactcaactattttaaaattttatctgctatttatttt---tttttatctttgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
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--tttccgatatttatgctt-gtattacagcttgaactgttttttcttttgaagttttttagaaccttttggagcgctcagttcaaatttctatatttcacagGATGCTATGGAGTATGCTGAATGTGAAGCTACTGTCAAAAGCTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTAGATGACATGGAACTTGTCA
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 3
aatttatggaagctatgagaagtggtgtggatggcatggatcgtgttac--tcaactattttaaaattttatctgctatttatttttttttatctttgaca----gGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
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-----gtgttaggctacaaacatgatgtgg-tattttttattgatttacgatccattagtttcaaatcaacaaagatttgtgttattcactatagtatacatacagGATGCTGTGGAGTATGCTGAATGTGAAGCTGCTGTGAAAGATTTCCCTCCATTTCGTGAAGCAATGAAGAGAAGAGGGATAGAGGACATGGATCTTGTGA
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 3
------aatttatggaagctatgagaagtggtgtggatggcatggatcgtgttactcaactattttaaaattttatctgctatttatttttttttatctttgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
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aaattggattcccaagctttgttttgaaagataatca-gaaatgtggagtttttttaagctgctgcaatcctcaattccctaataatctctct--atctt---cagGATGCTGAGGAATATGCAGAATGCGAGGCTGTTGTCAAAAGTTTTCCCCCATTTATAGAGGCTATGAAGAAAAGGGGTATTGAAGACATGGACCTTGTAA
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 2
aatttatggaagcta-tgagaagtggtgtggatggcatggatcgtgttactcaactattttaaaattttatctgctatttatttttttttatct-ttgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
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-attcaggatctttagtctttacatatttgtattttattt-tctttttatgtcgtaagttgaaattttcaattccgtaaggttctattctatccatcttcagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S9_129V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------------------------aatttatggaagct-atgagaagtggt----gtggatggcatggatcgtgttactcaactattttaaaattttatct-gctatttatttttttttatctttg--------acagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
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gtacttttgctctacttctacattagccgattaatttactaaacgattgagtgattggttgattcttatctaatcttgtgacaagtacttgcggcgcagatcttcgatgcctatgtcctaccaatatgagagttaattttgcaaatgattttttcttgtctgtgttgggatggcagGATGCTGTGGAGTATGCTGAATGTGAAGCACTTGTAAAAGAGCATCCAGCTGCCATTGAAGCCATGAAAAGAAGGGGGATTTACGACATGGATCTTGTTA
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S26_107V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------aattt----atggaagctatgagaagtggtgtggatggcatggatc----gtgttactcaactattttaaaattttatct--------gctatttatttttttttatctttga---cagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
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gtaactataaccttttcacagcatccgactttgcggtcgaggtgaaccattcctctcagcttttatttccaaatgaatatcgtcacatgagatggtaatcgcggaggttttaagcattcatcgagaattccgtgtactcgcctcaaatactgcaactgattaatgtgcggtgcggagtccagGATGCCATGGAGTATGCGGAATGTGAGGCTTTAGTGAAGGAGTATCCTCCCTTCGTTGAAGCCATGAAAAAGCGCGGAATCGAAGACATGGACCTTGTCA
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S178_54V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------------------aatttatggaa--gctatgagaagtggtgtggatggcatggatcgtgttactcaactattttaaaattttatctgctatttatttttt---tttatctt----tgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
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gtaggggtgctaagtctctgtagtagtcgttagttttctcatttactaggtggcacgaagttaattctttgagaagtgcctgtgggggcttttatcactgt-tctgtaagtgacttttacaattcgtgctgcgctgtcagGATGCTGTGGAGTATGCTGAATGTGAAGCAACTGTGAAAGAGCATCCGTCTTTCGTTGAAGCCATGAAGAAACGGGGTATCGAGGATATGGATCTTGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactcaactattttaaaattttatctgctatttatttttttttatctttgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
ctatttattttttttt CT-rich tract
aactattttaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttatggaagctatgagaagtggtgtggatggcatggatcgtgttactcaactattttaaaattttatctgctatttatttttttttatctttgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA