Sequence
atgc intronic sequence ATGC exonic sequencegtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g02290.1 (Oryza sativa), 3'ss of exon 6
gtcattccttgcttattcttgtttactttctgtactcctgttatt-catgatatt---ttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
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-gtgtggatttcttattccgttctacctgctagacttttgctatttcacaatattttcttttattatctcatttgcctccccatttccttttgcc--ctgctagtaacatctttttgtggcca--ccaattgaataaatagGTTATGTCTCTGATTGCATACTTGATGGAATTTAAAGGGAATTATGGACCACATCTCATAATTGTACCGAATGCTGTCTTGGTCAACTGGAAG
upper sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA09G39380.1 (Glycine max), 3'ss of exon 7
gtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
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----------------------ataggagatgtaagcagtttactc-------cttttatttccat-gatacttactgtgatggttgtgtgaacctcctgaaa---atttaaaatatttttttctctgtc----cagGTTATGGCATTAATTGCATACTTGATGGAGTTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTATGGTTAACTGGAAG
upper sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G46930.1 (Glycine max), 3'ss of exon 5
gtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
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---------------------cgtaggaggtgtaagaagattactc-------cttttattttcat-gatacttactgtgatggttatgtgaacctctggaaa---atttaaatattttt-ttctctgtc----cagGTTATGGCATTAATTGCATACTTGATGGAGTTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTATGGTTAACTGGAAG
upper sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA16G03950.1 (Glycine max), 3'ss of exon 6
gtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
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---------------------------------ttatgtcttatgtgggatatattagatttttatgggtaatacataatcatatactgt--agtacttgtgctttccttcaataatttttttctttcttgc--tagGTTATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTG------------
upper sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA07G07550.1 (Glycine max), 3'ss of exon 5
gtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
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------------------------------gatatattggatgtttatt---tgtatttgtatgggtaatacataat-tattcactgtagtacttgt--gtgttccttcaataaacttatatt-tttttctcgctagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
upper sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT2G46020.1 (Arabidopsis thaliana), 3'ss of exon 6
gtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtc--tatgctatttgttgta-atagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
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------------------------gttaaatctgttcccgatttgcagggattcctggatttactt---ttctttcgcctttggt--gaccaataaattattatattgtcctatcataatatactaattgttttgtacagGTAATGGCACTGATTGCTTACCTTATGGAGTTTAAAGGGAATTATGGACCGCATCTCATCATCGTTCCCAATGCTGTTCTGGTGAATTGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
tatttgttgtaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG