Sequence
atgc intronic sequence ATGC exonic sequencegtaagcaatggatatatgcccatgtccaagttaaacgaatactaggctataattgcattagtgatttcctttatttatcaatggttttcattatcgctttgatagctgatgttccacttcgtgcttctataataaatttaccattgttagtctataataaatttaccagtgttgctctgttcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCAAAAAGCATTAGCCATGTAATCATCAGCTTAAAGACTGTTAAAGGGACTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 3
gtaagcaatggatatatgcccatgtccaagttaaacgaatactaggctataattgcattagtgatttcctttatttatcaatggttttcattatcgctttgatagctgatgttccacttcgtgcttctataataaatttaccat-tgttagtctataataa-atttaccagtgttgctctgt-tcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCAAAAAGCATTAGCCATGTAATCATCAGCTTAAAGACTGTTAAAGGGACTA
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gtaagcacaccatatatgctaatttttaagtttgc--actaagatattgttcttgaatttgtgcattatttcattttctcttgat----attagcacatttataactgat------------------atgatattctcactgtctgtt--tctaaaataatatatatttgtgcttcattgccttttagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACAGGTGGATATGGAAAAAGCATTAGCCATGTAATCATAGGTCTGAAGACTGTAAAAGGGACTA
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g62040.1 (Oryza sativa), 3'ss of exon 3
gtaagcaatggatatatgcccatgtccaagttaaacgaatactaggctataattgcattagtgatttcctttatttatcaatggttttcattatcgctttgatagctgatgttccacttcgtgcttctataataaatttaccattgttag--tctataataa-atttaccagtgttgctctgt-tcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCAAAAAGCATTAGCCATGTAATCATCAGCTTAAAGACTGTTAAAGGGACTA
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----------------------------------gtaagcacatagttttagctagttttttaagtttgtgcaaggat-agtgttcttgaattacgttttcaca--------ctcattcataactgatacggta---ttcccattgtctgtttctaaaataatataaaactgtgcttcattgccttttagGTTACTGAACTTTCGCCAGAAGAAGCTGAGAGTACAACAAGTGGATATGGAAAAAGCATTAGCCATGTAATCATAGGTCTGAAGACTGTAAAAGGGACTA
upper sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
gtaagcaatggatatatgcccatgtccaagttaaacgaatactaggctataattgcattagtgatttcctttatttatcaatggttttcattatcgctttgatagctgatgttccacttcgtgcttctataataaatttaccattgt-tagtctataataaatttaccagtgttgctctgttcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCAAAAAGCATTAGCCATGTAATCATCAGCTTAAAGACTGTTAAAGGGACTA-------
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-------------------------------------------------------------------------gttatcactgattatgagt-tttttttgttaatag---tttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctct---tttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|9733358|gb|BE512215.1|BE512215EST: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAG GTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCA
genomic: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCA
EST:
gi|211207933|gb|FK975839.1|FK975839EST: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAG GTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCA
genomic: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatttaccattgttagtctataataaatttaccagtgttgctctgttcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCAAAAAGCATTAGCCATGTAATCATCAGCTTAAAGACTGTTAAAGGGACTA
ctctgttcct CT-rich tract
attgttagtctataat 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
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gtaagcaatggatatatgcccatgtccaagttaaacgaatactaggctataattgcattagtgatttcctttatttatcaatggttttcattatcgctttgatagctgatgttccacttcgtgcttctataataaatttaccattgttagtctataataaatttaccagtgttgctctgttcctagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACTGGTGGATATGCAAAAAGCATTAGCCATGTAATCATCAGCTTAAAGACTGTTAAAGGGACTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT