Sequence
atgc intronic sequence ATGC exonic sequenceGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgatagctaacaaaaccccaaaaaaaattgatgcagcaagtctttacccatcatcttatacctccttttggttttgttttgtttatatatttttgaaatggtgattctggggtttgccatgactgaatgtgattggctgcatgcgccacacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G021573_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g12950.1 (Oryza sativa), 5'ss of exon 3
GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgatagctaacaaaaccccaaaaaaaattgatgcagcaagtctttacccatcatcttatacctccttttggttttgttttgtttatatatttttgaaatggtgattctggggtttgccatgactgaa-tgtgattggctgcatgcgccacacag
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GCACAGGTGGACTGGAAGATATGAAGCCCACCTCTGGGATAACAGTTGCAAAAAGGATGGACAGACAAGGAAGGGAAGGCAAGgttgaaccttga----acatctagtactactacaacatcaaaatttgt----tcatcttaaaaatcttgttgacaatgtcattctgat---ttttatatttcatcatattgggcgttaccatgaccgaaatttgatcgcttgcag-----------
upper sequence: GRMZM2G021573_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G04910.1 (Glycine max), 5'ss of exon 4
GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgatagctaacaaaaccccaaaaaaaattgatgcagcaagtctttacccatcatcttatacctccttttggttttgttttgtttatatatttttgaaatggtgattctggggtttgccatgactgaatgtgattggctgcatgcgccacacag
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GCATAGGTGGACTGGTAGATACGAAGCTCATCTATGGGACAACAGCTGCAAGAAAGAGGGCCAAGGAAGGAAAGGAAGGCAAGgt--------aagaaagc---------aactattttctcacccctttacct----ttttttatttttctgtggatatatttggtcaaacaaatctactctctttaattttg--ttctcctttg--------------------------------
upper sequence: GRMZM2G021573_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G40380.1 (Glycine max), 5'ss of exon 2
GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgatagctaacaa-------aaccccaaaaaaaattgatgcagcaagtctttacccatcatcttatacctcc-----ttttggttttgttttgttt--atatatttttgaaatggtgat--tctggggtttgccatgactgaatgtgattggctgcatgcgccacacag------------------
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GCATAGGTGGACTGGTAGATATGAAGCTCATCTATGGGACAACAGCTGCAAGAAAGAGGGCCAAGGAAGGAAAGGAAGGCAAGgtaagaaagcgactattttcgcacccctttacctttttttctttttctgtgtatatttttggtcaaacaaatctattgactttaattttgttctcctttgaaaagctctgcatttagtgctgatcttttttttcttcttcttatctttgattcggtgatgattccactcaaacatgggatgaatctcag
upper sequence: GRMZM2G021573_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G22970.1 (Glycine max), 5'ss of exon 5
GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgtt-gatagctaacaaaaccccaaaaaaaattgatgcagcaagtctttacccatcatcttatacctccttttggttttgttttgtttatatatt--tttgaaatggtgattctggggttt----gccatgactgaatgtgatt-ggctgcatg-cgccacacag-----------------------------------
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GCATAGGTGGACTGGGAGATATGAAGCTCATCTTTGGGACAACAGCTGCAAGAAAGAGGGGCAAAGCAGGAAAGGAAGACAAGgtaagaaagggactatattccccatcactttttcttttgtttttctcttgtgcatatttttggtcaagcatctatctatttgagttccaatgttcctttgtagcaaagatctgcattttttttagtcatcactcattcttttttggttttataactttgcgttgcggggaatgccaccgaaatatacgatgaatctcag
upper sequence: GRMZM2G021573_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA17G17010.1 (Glycine max), 5'ss of exon 4
GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgatagctaacaaaaccccaaaaaaaattgatgcagcaagtctttacccatcatcttatacctccttttggttttgttttgtttatatatttttgaaatggtgattctggggtttgccatgactgaatgtgattggctgcatgcgccacacag
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GCATAGGTGGACTGGGAGATATGAAGCTCATCTTTGGGACAACAGCTGCAAGAAAGAGGGGCAAAGCAGGAAAGGAAGACAAGgt--attaagaaaggggctatattctcaatcactttttc----ttttgttttttctcttgtgcattgtcttggtcaaacat-atctatctatttgagttccactgtt------------------------------------------------
upper sequence: GRMZM2G021573_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgat---agctaacaaaaccc-caaaaaaaattgatgcagca--agtctttacccatcatcttat---acctccttttggttttgttttgtttatatatttttgaaa-tggtgattctggggtttgccatgactg--aatgtgattggctgcatgcgccacacag
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GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgact-tacactattactccttgtcatgttcatggttattggggatgccattccaatcaattg-atgcaat-tgcagMapped 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|94479778|gb|EB708736.1|EB708736EST: CTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG TATATCTAG
genomic: CTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgatagct ... cgccacacagTATATCTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgatagctaacaaaaccccaaaaaaaattgatgcagcaagtctttacccatcatcttatacctccttttggttttgttttgtttatatatttttgaaatggtgattctggggtttgccatgactgaatgtgattggctgcatgcgccacacag
- - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG