Sequence
atgc intronic sequence ATGC exonic sequenceAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAGgtaatcactgacctgtttactaaaattttagactgtagctcagataaggctttgagcattcctcagtagtaatatatttcgtttgtcgccacacaactataagcaaaccgtattaaaagaacatttctgaatgtttacatttcattgtcctgttttttttttacgtacacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163409_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os10g35580.1 (Oryza sativa), 5'ss of exon 3
AGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAGgtaatcactgacctgtttactaaaattttagactgtagctcagataaggctt-tgagcattcctcagtagtaatatatttcgtttgtcgccacacaactataagcaaaccgtattaaaagaacatttctgaatgtttacatttcattgtcctgttttttttttacgtacacag
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AAGTGAACAAGCTTACCAAGGGAAGGCCCCTTGACAATCTGGAATTCATGCAATGGATGAAGCGATACTGTGATTCGGTCAATGGAGGCTTCATGAACAGgtaatctgttacatact-----attctctaacctgt--ccaatttttgatttgtgagattttgtcag--gttcaaaattctgtttgtgacaatttcattt--aattgctcgt-ctaaaaccttatgtattgctgttctttgtgaattgattcacag-----------------
upper sequence: GRMZM2G163409_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G05560.1 (Glycine max), 5'ss of exon 3
AGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAGgtaat--cactgacctgtttactaaaatt-ttagactgtagctcagataaggctttgagcattcctcagtagtaatatatttcgtttgtcgccacacaactataagcaaaccgtattaaaagaacatttctgaatgtttacatttcattgtcctgttttttttttacgtacacag
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AGGTCAGCAAGCTGGTGAAAGGAAGGCCACTGGATAACCTCGAGTTCATGCAATGGATGAAACGATACTGCGATTCTGTCGATTCCGGCCTTCAGTACAAgtaatattattaatccctaatataatatcatttcattcgaatacatttgttgtgtcagatttctctttgctttaa-attctctgattcgcgttgaatagtt--------------------------------------------------------------------------
upper sequence: GRMZM2G163409_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G39720.1 (Glycine max), 5'ss of exon 3
AGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAGgtaatcactgacctgtttactaaaattttagactgta-gctcagataaggctttgagcattcctcagtagtaatatatttcgtttgtcgccacacaactataagcaaaccgtattaaaagaacatttctgaatgtttacatttcattgtcctgttttttttttacgtacacag
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AGGTCAGCAAGCTGGTGAAAGGAAGGCCACTGGATAACCTCGAGTTCATGCAATGGATGAAACGATACTGCGATTCTGTCAATTCCGGCCTTCAGCACAAgtaat-attattaatcctaatttaatttcatttcattcgcatacatttgtcgttgtagatttctcttt-gttttaaaattctctgaaattgactttttcgcg-----------------------------------------------------------------------
upper sequence: GRMZM2G163409_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv07s0129g01080.t01 (Vitis vinifera), 5'ss of exon 3
AGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAGgtaatcactgacctgtttactaaaattttagactgtagctcagataaggctttgagcattcctcagtagtaatatatttcgtttgtcgccacacaactataagcaaaccgtattaaaagaacatttctgaatgtttacatttcattgtcctgttttttttttacgtacacag
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AGGTAAGCAAGCTTGTGAAAGGAAGACCTCTTGATAATCTGGAGTTCATGCAATGGATGAAGAGATACTGTGACTCGGTTAATGGAGGCCTTTTAAACAGgtaattgcaaccatgatttctct--ttttatgttccatttcat-tcattctttagatgccccttcat--ttctttttctcattgggttgttcagaattgtttgaa-------------------------------------------------------------------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|26558995|gb|CA831230.1|CA831230EST: CAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAG CTACAATGCTTCTGAGAGAAGGGAAAGCAGCAAAGGGGGAAAGGAGACGAA
genomic: CAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAGgtaatcactg ... acgtacacagCTACAATGCTTCTGAGAGAAGGGAAAGCAGCAAAGGGGGAAAGGAGACGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCATGAGCAGgtaatcactgacctgtttactaaaattttagactgtagctcagataaggctttgagcattcctcagtagtaatatatttcgtttgtcgccacacaactataagcaaaccgtattaaaagaacatttctgaatgtttacatttcattgtcctgttttttttttacgtacacag
- - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG