Sequence
atgc intronic sequence ATGC exonic sequence...tcatacctacaaggacaagctagccttgttgttgaccccttattttatggcaagatttatttgcttaaacactggctaaaaaatagcatctttcatgtagGTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTCCCACTCGATGAGCTGCGGCCCTTAAGTTGCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g56670.3 (Oryza sativa), 3'ss of exon 1
tcatacctacaaggacaagctagccttgttgttgaccccttattttatggcaagatttatttgcttaaacactgg---ctaaaaaatagcatctttcatgtagGTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTCCCACTCGATGAGCTGCGGCCCTTAAGTTGCCAAG---------------
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--aacctcattaagagatatcttccacttcaacaagacgccatcttgtt-tacaattaacatgtgcagaatctagtattcatatggaaatgtcttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTCCACTTGATGAATTGCGGCCTTTAAGTTGCCAAGGAGAAGATTCACTTG
upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT5G43710.1 (Arabidopsis thaliana), 3'ss of exon 1
tcatacctacaaggacaagctagccttgttgttgaccccttatttt-atggcaagatttatttgcttaaacactggctaaaaaat---agcatctttcatgtagGTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTCCCACTCGATGAGCTGCGGCCCTTAAGTTGCCAAG---------------
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----actagctgagatcacttggtttgatagtggagttgcagctttgacctttttgttcgataattaccttatttgatgatgggtttgatcacattgagtgtagGTACGTGGGATGTTTTATCATGCCTTTGATGGATATATGAACAATGCGTTTCCACTCGATGAATTGAGACCGTTATCTTGCCAAGGAGAAGATACTCTTG
upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 1
-------tcatacctacaaggacaagctagccttgttgttgaccccttattttatggcaagatttatttgcttaaacactggctaaaaaatagcatctttcatgtagGTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTCCCACTCGATGAGCTGCGGCCCTTAAGTTGCCAAG---------------
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taatgattcgaacttaagggaataggaaaattccaatat-gagttgggatttagctaaatggtttat--ggttggtaattgat--gcatttaccgtatgcca--tagGTACGTGGCATGTTCTATCATGCGTTTGATGGATATATGGAGAATGCTTTTCCTTTAGATGAATTAAGACCTCTGACATGCGAGGGAGAAGACACACTAGMapped 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|76281155|gb|DV020723.1|DV020723EST: CCGTCGCCGAAGGTGTCACGCCCTCCGAGGCGCGCCGGCTCCGCGACGAG GTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTC
genomic: CCGTCGCCGAAGGTGTCACGCCCTCCGAGGCGCGCCGGCTCCGCGACGAGgtagtgcggg ... tttcatgtagGTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatggcaagatttatttgcttaaacactggctaaaaaatagcatctttcatgtagGTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTCCCACTCGATGAGCTGCGGCCCTTAAGTTGCCAAG
ggctaaa putative branch site (score: 3)
catctttc putative PPT
atttatttgcttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatacctacaaggacaagctagccttgttgttgaccccttattttatggcaagatttatttgcttaaacactggctaaaaaatagcatctttcatgtagGTGAAAGATATGTTCTATCATGCGTTTGATGGATACATGAAGTATGCTTTCCCACTCGATGAGCTGCGGCCCTTAAGTTGCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC