Sequence
atgc intronic sequence ATGC exonic sequencegttaggacaaaaaaaacgatagctgttgctgtcactcaatgcttggtatttgacagaagtgctgaataatttgtatgaacccaatgtcacactggaggataagtaaatgaagtatttctgattgctatgttgttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCTGGAGGAGTGCATCTAGAGATGACTGGACAAAATGTTACAGAGTGCATCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G828182_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g37790.1 (Oryza sativa), 3'ss of exon 4
gttaggacaaaaaaaacgatagctgttgctgtcactcaatgcttggtatttgacagaagtgctgaataatttgtatgaacccaatgtcacactggaggataagtaaatgaagtatttctgattgctatgttgttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCTGGAGGAGTGCATCTAGAGATGACTGGACAAAATGTTACAGAGTGCATCG
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--------------------------------------atcgtacacgtttaa-acttctactatactattcatttgacattaacatgac-cggcgacttaaatcaactaag-atgacttat-gttgccttcttgaaaccagGCTGAGGTGCGCGCATTCTTTGATGTGCACGAACAAGAAGGCAGCCACCCAGGAGGGGTGCATCTGGAGATGACTGGACAAAATGTGACAGAATGCATCG
upper sequence: GRMZM5G828182_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv00s1217g00010.t01 (Vitis vinifera), 3'ss of exon 4
gttaggacaaaaaaaacgatagctgttgctgtcactcaatgcttggtatttgacagaagtgctgaataatttgtatgaacccaatgtcacactggaggataagtaaatgaagtatttctgattgctatgttgttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCTGGAGGAGTGCATCTAGAGATGACTGGACAAAATGTTACAGAGTGCATCG
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---------gtaagaactttaccaatga-----agccaagattttcaaacttccagga--tcttgtcaatccatagattggttattttacactttgggg--attcattgaggtgctttt--------ctctctttcagTCAGAAT----TGCGAGCTTTCTTTGATGTTCATGATCAAGAAGGGAGCCACCCAGGAGGAGTTCATCTGGAAATGACTGGGCAGAATGTAACAGAGTGCATTGMapped 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|89106795|gb|DY577012.1|DY577012EST: TATCAATGAGCAGCCAAAG GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: TATCAATGAGCAGCCAAAGgttaggacaa ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
EST:
gi|26455232|gb|CA826815.1|CA826815EST: TATCAATGAGCAGCCAAAG GGTGAGG-GCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: TATCAATGAGCAGCCAAAGgttaggacaa ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
EST:
gi|87155006|gb|DY399795.1|DY399795EST: TATCAATGAGCAGCCAAAG GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: TATCAATGAGCAGCCAAAGgttaggacaa ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacactggaggataagtaaatgaagtatttctgattgctatgttgttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCTGGAGGAGTGCATCTAGAGATGACTGGACAAAATGTTACAGAGTGCATCG
ttctgat putative branch site (score: 3)
taaatgaagtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaggacaaaaaaaacgatagctgttgctgtcactcaatgcttggtatttgacagaagtgctgaataatttgtatgaacccaatgtcacactggaggataagtaaatgaagtatttctgattgctatgttgttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCTGGAGGAGTGCATCTAGAGATGACTGGACAAAATGTTACAGAGTGCATCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG