Sequence
atgc intronic sequence ATGC exonic sequenceCTAAGTTGAAAAAGCAAGTCAAGCGCACCAAAGAAATTCTTAGTGCAAACACTGCAGCTCCAATTTCAGTAGAATCTCTGTATAATGATGTTGATTTCAGgtgcatctctactctatcttatatactgtaaacacataactattgctcaagaaatatggatgcagcatgtaaaaaggtcaagaatcaagatcaatgaaaa...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G020040_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g48110.1 (Oryza sativa), 5'ss of exon 2
CTAAGTTGAAAAAGCAAGTCAAGCGCACCAAAGAAATTCTTAGTGCAAACACTGCAGCTCCAATTTCAGTAGAATCTCTGTATAATGATGTTGATTTCAGgtgcatctctactctatcttatatactgtaaacacataactattgctcaagaaatatggatgcagcatgtaaaaaggtcaagaatcaagatcaatgaaaa-------
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CTAAGTTGAAGAAGCAAGTTAAGCGTACCAAAGAAATTCTGAGTGCAAATACTGCTGCTCCAATTTCAGTTGAATCACTATATAATGATCTCGATTTCAGgtgcgtcctcaccac-ttgcataatcttcacacatgtaa-tatggaccgatatttataaattca-taaatggaaattt----acttaacatttttggattctctgtt
upper sequence: GRMZM2G020040_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA20G16070.1 (Glycine max), 5'ss of exon 1
CTAAGTTGAAAAAGCAAGTCAAGCGCACCAAAGAAATTCTTAGTGCAAACACTGCAGCTCCAATTTCAGTAGAATCTCTGTATAATGATGTTGATTTCAGgtgcat---ctcta---ctctat-cttatatactgtaaacacataactattgctcaagaaatatggatgcagcatgtaaaaaggt--caagaatcaagatcaatgaaaa
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CTAAGTTGAAGAAACAGGTTAAAAGGACTAAAGAGATTCTTAGTGCTAACACAGCAGCTCCTATTTCAGTTGAATCGCTTCTTGATGACGTCGATTTCAGgtacgtggattttaaaattgtattcctgatttttatgagtttgtatgttatactctatgggactgaacaaaagttggcagtttgtgataagaatcatggt---------
upper sequence: GRMZM2G020040_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT4G16660.1 (Arabidopsis thaliana), 5'ss of exon 3
CTAAGTTGAAAAAGCAAGTCAAGCGCACCAAAGAAATTCTTAGTGCAAACACTGCAGCTCCAATTTCAGTAGAATCTCTGTATAATGATGTTGATTTCAGgtgcatctctactctat-----cttatatactgtaaacacat--aactattgctcaagaaatatggatgcagcatgtaaaaaggtcaa--gaatcaagatcaatgaaaa--------------------------------------------
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CTAAATTGAAAAAACAAGTCAAGCGTACAAAGGAAATTTTGAGTGCAAACACTGCGGCTCCAATATCTGTGGAATCTCTTCATGATGATCGTGACTTCAGgtataactacaatatttgggtttctctatttccccagcacatcgaaaattggctgcaaaagtgttataatgatgtctcatgctctaaattgcatcatgattggtctaatttttgtgatgtgcgtgatattctaacctacttatcttttttcag
upper sequence: GRMZM2G020040_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv09s0096g00090.t01 (Vitis vinifera), 5'ss of exon 4
CTAAGTTGAAAAAGCAAGTCAAGCGCACCAAAGAAATTCTTAGTGCAAACACTGCAGCTCCAATTTCAGTAGAATCTCTGTATAATGATGTTGATTTCAGgtg----catctctactctatcttatatactgtaaacacataactattgctcaagaaatatggatgcagcatgtaaaaaggtcaagaatcaagatcaatgaaaa
|||| ||||| || || || ||||| || ||||||||||| ||||| ||||| || |||||||| ||||||||||| || ||| ||||| || ||||||| || || || ||| | | ||| | | | || | || |||| | | ||| || |
CTAAATTGAAGAAACAGGTTAAGCGGACAAAAGAAATTCTAAGTGCGAACACGGCTGCTCCAATATCAGTAGAATCCCTCTATGATGATCGAGACTTCAGgtatgaccaatcatatacttccttgctcatcttttctgtccaacatcagtttttggttatcctttgtttagtatagaaagttagaactgtaaggacatag----
upper sequence: GRMZM2G020040_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv04s0043g00710.t01 (Vitis vinifera), 5'ss of exon 2
----------------------------------------------------------CTAAGTTGAAAAAGCAAGTCAAGCGCACCAAAGAAATTCTTAGTGCAAACACTGCAGCTCCAATTTCAGTAGAATCTCTGTATAATGATGTTGATTTCAGgtgcatctctactctatcttatatactgtaaacacataactattgctcaagaaatatggatgcagcatgtaaaaaggtcaagaatcaagatcaatgaaaa
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GAGTTCAACCAACAAGTTGGAAATGGAGTTGATGTGAGGAAGTTCCCCAAGGCAATGGCTAAATTGAAGAAACAGGTTAAGCGGACAAAAGAAATTCTAAgtgcgaacacggctgctccaatatcaatagaatccctctatgatgattgag-----------------------------------------------------------------------------------------------------------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|78179804|gb|DV550177.1|DV550177EST: GTTGATTTC-G GAGTACCATAACACGTGAGAAATTTGAAGAGCTGTGTGAGGATTTATGGGA
genomic: GTTGATTTCAGgtgcatctct ... tttgttacagGAGTACCATAACACGTGAGAAATTTGAAGAGCTGTGTGAGGATTTATGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTAAGTTGAAAAAGCAAGTCAAGCGCACCAAAGAAATTCTTAGTGCAAACACTGCAGCTCCAATTTCAGTAGAATCTCTGTATAATGATGTTGATTTCAGgtgcatctctactctatcttatatactgtaaacacataactattgctcaagaaatatggatgcagcatgtaaaaaggtcaagaatcaagatcaatgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC