Sequence
atgc intronic sequence ATGC exonic sequenceGCTCCAGAGAAAATTGCAGACAAGGAATCAGAGTGCGATATCAGTATCCTGAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTGacaggtgctgtattttcactcttctgcaacacttagaatttctctgtattttcactcttctgcaacacttagaatttctctcagtgcttatgttatagtattcaacctaacgttctgattgatgaccgaccagccttttagttgaggagatagatttgggagatggtaatgtgcgtcaa
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G166345_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g60660.1 (Oryza sativa), 5'ss of exon 7
GCTCCAGAGAAAATTGCAGACAAGGAATCAGAGTGCGATATCAGTATCCTGAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTGacaggtgct-gtattttcact-cttctgcaaca-cttagaatttctctgtattttcactcttctgcaacacttagaatttctctcagtgcttatgttatagtattcaacctaacgttctgattgatgaccgaccagccttttagttgaggagatagatttgggagatggtaatgtgcgtcaa
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----CACAGAAAACTGCAGAAAAGGACTCAGAATGCAATGTCAGTATCCTGAATATACAGGTTGGCCTTATTCGCAAAGCATGGAAGCACCCATCTGCTGACAGgtacccataacttttctgcttatgcaacaattcaaaatggttcaacagttgtattgtgctctttgaacaaatattctaactggtctctctttt-cag---------------------------------------------------------------------------------
upper sequence: GRMZM2G166345_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g60660.2 (Oryza sativa), 5'ss of exon 7
GCTCCAGAGAAAATTGCAGACAAGGAATCAGAGTGCGATATCAGTATCCTGAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTGacaggtgct-gtattttcact-cttctgcaaca-cttagaatttctctgtattttcactcttctgcaacacttagaatttctctcagtgcttatgttatagtattcaacctaacgttctgattgatgaccgaccagccttttagttgaggagatagatttgggagatggtaatgtgcgtcaa
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----CACAGAAAACTGCAGAAAAGGACTCAGAATGCAATGTCAGTATCCTGAATATACAGGTTGGCCTTATTCGCAAAGCATGGAAGCACCCATCTGCTGACAGgtacccataacttttctgcttatgcaacaattcaaaatggttcaacagttgtattgtgctctttgaacaaatattctaactggtctctctttt-cagcctc-----------------------------------------------------------------------------
upper sequence: GRMZM2G166345_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g60660.1 (Oryza sativa), 5'ss of exon 8
GCTCCAGAGAAAATTGCAGACAAGGAATCAGAGTGCGATATCAGTATCCTGAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTGacaggtgctgtattttcactcttctgcaacacttagaatttctctgtattttcactcttctgcaacacttagaatttctctcagtgcttatgttatagtattcaacctaacgttctgattgatgaccgaccagccttttagttgaggagatagatttgggagatggtaatgtgcgtcaa
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-----------CCTCTTGGTTGAGGAGATAGATTTGGGAGATGGCAATGTGCAT---CAAGTTG---TTAGTGG----GCTTGCCAA-GTTCTTCAGCCCAGAGGAACT-TGTTgtgagtatttaacagca---acaatggacttgaattattcctgttc-------------atttttcttgcca-tgaaattgtttcatccaagattctgttttctgtaataaacaact-gccttttccttcacag-------------------------------
upper sequence: GRMZM2G166345_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv13s0067g03060.t01 (Vitis vinifera), 5'ss of exon 7
GCTCCAGAGAAAATTGCAGACAAGGAATCAGAGTGCGATATCAGTATCCTGAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTGacaggtg--ctgtattttca-ctcttctgcaacacttagaatttctctgtattttcactcttctgcaacacttagaatttctctcagtgcttatgttatagtattcaacctaacgttctgattgatgaccgaccagccttttagttgaggagatagatttgggagatggtaatgtgcgtcaa
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----AAAAAGAAGCAGTTGAGAAAGATAAAGAAGTCAGCATCAGTTTGCTCAATATACAGGTTGGACTTATTCGGAAAGCATGGAAGCATCCATCTGCAGATAGgtgtgctgtaatctcttctctttctcttcctttcggttttcatttttcctttttccttctcaaa---tttatattgcctacaa--cctgaggtacctca---agccta----------------------------------------------------------------------Mapped 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|33095166|gb|CF055160.1|CF055160EST: GAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTG GTTGTTAGTGGTCTTGCAAAGTATTGCAGCCCAGATGATCTTACT
genomic: GAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTGacaggtgctg ... tgtgcgtcaaGTTGTTAGTGGTCTTGCAAAGTATTGCAGCCCAGATGATCTTACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTCCAGAGAAAATTGCAGACAAGGAATCAGAGTGCGATATCAGTATCCTGAATATACAGGTTGGCCTTATCCGTAAAGCATGGAAGCATCCATCTGCTGacaggtgctgtattttcactcttctgcaacacttagaatttctctgtattttcactcttctgcaacacttagaatttctctcagtgcttatgttatagtattcaacctaacgttctgattgatgaccgaccagccttttagttgaggagatagatttgggagatggtaatgtgcgtcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG