Sequence
atgc intronic sequence ATGC exonic sequencegtcatattcattctgtatattctatacacacttcgctaattctatctttgacaagtatgggtgattaactgattacatgtctccatgcttgattatgataaatatttctcatacttgtagGTTATTAATCTGTACCTTGAATTGTTGAAGGAGCGAGAAAAAAGAGAACCAAACAGGTTTCTGAAATGTCATTTCTTTAATACATTCTTTTATAAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G849959_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g22400.3 (Oryza sativa), 3'ss of exon 3
--------------------------------------------gtcatattcattctgtatattctatacacacttcgctaattctatctttgacaagtatgggtgattaactgattacatgtctccatgcttgattatgataaatatttctcatacttgtagGTTATTAATCTGTACCTTGAATTGTTGAAGGAGCGAGAAAAAAGAGAACCAAACAGGTTTCTGAAATGTCATTTCTTTAATACATTCTTTTATAAGAAG-
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gtaactatctatcttgaatatacttatatatgaaacaaactccactagtatctatggtttacttcctttttttaaaaaaaagattg-atggtttacatggaccggcgatgaccctgcc-catattatcttacgtaatgagggcatgtattcctcttacatgcagGTCATTAATTTGTACCTTGAATTATTGAAGGAGAGAGAGGCAAGAGAACCAAAAAGGTTTTTGAAATGCCATTTCTTTAATACATTTTTTTATAAGAAGG
upper sequence: GRMZM5G849959_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g22400.2 (Oryza sativa), 3'ss of exon 3
--------------------------------------------gtcatattcattctgtatattctatacacacttcgctaattctatctttgacaagtatgggtgattaactgattacatgtctccatgcttgattatgataaatatttctcatacttgtagGTTATTAATCTGTACCTTGAATTGTTGAAGGAGCGAGAAAAAAGAGAACCAAACAGGTTTCTGAAATGTCATTTCTTTAATACATTCTTTTATAAGAAG
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gtaactatctatcttgaatatacttatatatgaaacaaactccactagtatctatggtttacttcctttttttaaaaaaaagattg-atggtttacatggaccggcgatgaccctgcc-catattatcttacgtaatgagggcatgtattcctcttacatgcagGTCATTAATTTGTACCTTGAATTATTGAAGGAGAGAGAGGCAAGAGAACCAAAAAGGTTTTTGAAATGCCATTTCTTTAATACATTTTTTTATAAGAAG
upper sequence: GRMZM5G849959_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0020g01220.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------gtcatattcattctgtatattctatacacacttcgctaattctatctt--tgacaagtatgggtg-attaactgatta-catgtctccatgcttgattatgataaatatttctcatactt--gtagGTTATTAATCTGTACCTTGAATTGTTGAAGGAGCGAGAAAAAAGAGAACCAAACAGGTTTCTGAAATGTCATTTCTTTAATACATTCTTTTATAAGAAG
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gtggttctttgggttgtagttgctcaatttttctgtgaattttgaaaaagtagagagctttgtgatctcttaaacatgtgaatgctgcttgcagacctagttggatcaactggttaacttgtaaaccggtttcttagacaggaatgtgctttcttcttttgtagGTCATAAATGTGTACCTCGAGTTACTGAAAGAGAGAGAAAAGAGAGAACCGAAAAAGTTTTTGAAATGTCATTTCTTCAACACATTCTTTTATAAAAAGMapped 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|78110344|gb|DV528756.1|DV528756EST: GCAAAGAGAAATTCCAGTGCTTGAGACGTGGCTGCTGGTTAAATGATGAG GTTATTAATCTGTACCTTGGATTGTTTGA-GGAGCGAGAAAA
genomic: GCAAAGAGAAATTCCAGTGCTTGAGACGTGGCTGCTGGTTAAATGATGAGgtcatattca ... atacttgtagGTTATTAATCTGTACCTTGAATTGTT-GAAGGAGCGAGAAAA
EST:
gi|76289858|gb|DV029426.1|DV029426EST: GCAAAGAGAAATCCCAGTGCTTGAGACGTGGCTGCTGGGTAAATGATGAG GGTATTAATCT
genomic: GCAAAGAGAAATTCCAGTGCTTGAGACGTGGCTGCTGGTTAAATGATGAGgtcatattca ... atacttgtagGTTATTAATCT
EST:
gi|76912086|gb|DV164569.1|DV164569EST: GCAAAGAGAAATTC-AGTGCTTGAGACGTGGCTGCTGGTTAAATGATGAG GTTATTAATCT
genomic: GCAAAGAGAAATTCCAGTGCTTGAGACGTGGCTGCTGGTTAAATGATGAGgtcatattca ... atacttgtagGTTATTAATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactgattacatgtctccatgcttgattatgataaatatttctcatacttgtagGTTATTAATCTGTACCTTGAATTGTTGAAGGAGCGAGAAAAAAGAGAACCAAACAGGTTTCTGAAATGTCATTTCTTTAATACATTCTTTTATAAGAAG
tttctcat CT-rich tract
attatgataaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatattcattctgtatattctatacacacttcgctaattctatctttgacaagtatgggtgattaactgattacatgtctccatgcttgattatgataaatatttctcatacttgtagGTTATTAATCTGTACCTTGAATTGTTGAAGGAGCGAGAAAAAAGAGAACCAAACAGGTTTCTGAAATGTCATTTCTTTAATACATTCTTTTATAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG