Sequence
atgc intronic sequence ATGC exonic sequenceAGTGCAGCTCTCACGCTAGATCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgcacaacacgagattattgctttactggcatggtcacctcatgttttaaaattttcttcttactccttttttttgacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G414002_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os07g40510.1 (Oryza sativa), 5'ss of exon 4
AGTGCAGCTCTCACGCTAGATCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgcacaacacgagattattgctttactggcatggtcacctcatgttttaaaattttcttcttactccttttttttgacag
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AGTGCGGCTTTGGCACTGGACCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACAAAAGAAGAAATGGAACTTCTCAAGgt----aatacaatgtt-tggccttgttgtgatc-tcatctgaaaact--atgttggcttactgtctcgtttttttc-cag
upper sequence: GRMZM2G414002_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA17G11100.1 (Glycine max), 5'ss of exon 10
AGTGCAGCTCTCACGCTAGATCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgcacaacacgagattattgcttta--ctggcatggtcacctcatgttttaaaattttcttcttactccttttttttgacag---------------------------------------------------------------------
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GCTGCAGTACTAGCTTTGGATGAGTCAGTATTGGATGTTGATCAAGTGGAAAATCTCATTAAGTTTTGTCCTACCAAAGAGGAGATGGATCTTTTGAAGgtgaagtttaacaaatttatccataattcttacatcttgttttaacaattaaggtttctagtttgtggtatcttctgtaacactaaaatatatccttttactgtgatttgtttaatttctaattttgtttcctcttgtttatggttgtttag
upper sequence: GRMZM2G414002_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA06G21190.1 (Glycine max), 5'ss of exon 10
AGTGCAGCTCTCACGCTAGATCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgcacaacacgagattattgcttta--ctggcatggtcacctcatgttttaaaattttcttcttactccttttttttgacag-----------------------------------------------------------------------
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GCTGCAGTACTGGCTATGGATGATTCAGTGTTAGATGTTGATCAGGTGGAAAATCTCATTAAATTTTGTCCTACCAAAGAGGAAATAGAGCTTTTAAAGgtgaagcttaacaaatttatacatgattcttgcatcttgctttgacaattaagggttctcatttctagcatttgctgttactatgaatttctaccttttattgtaattttcttgcttttctaattttgattaatcttggttatggtttatatag
upper sequence: GRMZM2G414002_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA05G00820.1 (Glycine max), 5'ss of exon 8
AGTGCAGCTCTCACGCTAGATCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgcacaacacgagattattgctt--tactggcatggtcacctcatgttttaaaatttt--cttcttactccttttttttgacag-------------------------------------------------------------------
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GCTGCAGTACTAGCTTTGGATGAGTCGGTATTGGATGTTGATCAAGTGGAAAATCTCATTAAGTTTTGTCCTACCAAAGAGGAGATGGATCTTTTGAAGgtgaagtttaacaaatttatccatacttcttacatcttgttttaacaattaaggtttctagtttgtggcatcttctgttagactaaaatatatccttttactctgatttgtttaatctctaattttgattcctcttgtttatgattgtttag
upper sequence: GRMZM2G414002_T02 (Zea mays), 5'ss of exon 7
lower sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 9
AGTGCAGCTCTCACGCTAGATCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgca----caacacgag--attattgctttactggcatggtcacctcatgttttaaaa---ttttcttct-tactccttttttttgacag--------------------------------------------------------------------
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GCTGCAGTTCTAGCAATGGATGAGTCAATTTTAGATGTTGATCAAGTGGAAAATCTCATAAAGTTCTGCCCTACTAAAGAGGAGATGGAACTTCTTAAGgtgcagcaataacacaagtcataattttcttctatgtttcattagctattcaatggaagacgttctctgctgtgaggatgtttgttgagtatattggtctacctgtttttctttcttagtttttccccttagactaatgatttctgtttgtttatttagMapped 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|32938513|gb|CF043332.1|CF043332EST: AGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAG AATTACACTGGAGACAAACAGATTCTTGGGAAATGTGAACAG
genomic: AGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgcacaaca ... tttttgacagAATTACACTGGAGACAAACAGATTCTTGGGAAATGTGAACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTGCAGCTCTCACGCTAGATCAATCTACCTTGGATGTTGATCAAGTGGAGAATCTCATAAAGTTCTGTCCTACGAAAGAAGAAATGGAACTTCTCAAGgtgcacaacacgagattattgctttactggcatggtcacctcatgttttaaaattttcttcttactccttttttttgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA