Sequence
atgc intronic sequence ATGC exonic sequence...ttgatcccccacttgtatgcagctatctgaccttagatgcatttaaaatttctctatgcactgataggctacttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os03g50480.1 (Oryza sativa), 3'ss of exon 11
-ttgatcccccacttgtatgcagctatctgaccttagatgcatttaaaatttctctatgcactgataggctac-ttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG
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actga--ccatatttgcagtaaacttctaagtcagaacttttaatgaaaggatgtaaaataccgctgtgctaccttatgttgatctattgataaaattgcagGAGCATGCCCACATCAGCTGCCCTTGATGTTGTCGCTAAGAATTTGAATCTCAAGTTCTTTGAG
upper sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA03G05150.1 (Glycine max), 3'ss of exon 4
ttgatcccccacttgtat-gcagctatctgaccttagatgca-tttaaaatttctctat--gcactgataggctacttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG-----------------
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----tcttgagcttatttcataggaactggatcttttgtgtaacttcatttctctccaccagttttaccgatataccaattttaaattataaatatttgtgtagGAGCATGCCAACCTCTGCTGCCCTGGATGTTGTTGCCAAACATCTGAATTTGAAATTTTTTGAGATATATTGCTCTTCAAT
upper sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA08G04890.1 (Glycine max), 3'ss of exon 11
ttgatcccccacttgtatgc-agctatctgaccttagatgca-tttaaaatttctctat--gcactgataggctacttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG
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----tcttgagcttatttcctagcaacttgatcttttgtgtaacttcatttctctccaccagttttaccaatataccaattttaaattataaatatttgtgtagGAGCATGCCAACCTCTGCTGCCCTGGATGTTGTTGCCAAACATCTGAATTTGAAATTTTTTGAG
upper sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 11
lower sequence: AT1G70730.1 (Arabidopsis thaliana), 3'ss of exon 11
--------------------ttgat--cccccacttgta---tgcagctatctgaccttag----atgcatttaaaatttctctatgcactgataggctacttacgacaa---------tctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG
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gtatgcatcccggttcttctttgtttactccagttcatagattgaaaacgctggactttggtgtcatacgtttttgtttattatagatagtaacaatcttttctcattaaattctcaactttcacattcgtattgcagGAGCATGCCGACCTCAGCTGCACTTGATGTCGTTGCAAAAAACTTGGGTTTGAAGTTCTTTGAG
upper sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 11
lower sequence: AT1G23190.1 (Arabidopsis thaliana), 3'ss of exon 11
----------------ttgatcccccacttgtatgcagctatctgacctta-gatgcatttaaaatttctctatgcactgataggctacttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG
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gtattatacacctgggctctttttttacttcta-gtagaattctgtgtatacaactcttttaatatatcttt-----tttgtggattattt--tgtaacttccacttcttgttttagGAGCATGCCAACCTCAGCTGCTCTTGATGTCGTTGCAAAAAGCTTGAATTTGAAGTTCTTTGAGMapped 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|116816329|gb|EC859054.1|EC859054EST: GCTGTTCAATCAATTCCTTACTTTGCTTCTGGCCTGAAGGGAGTTGCCAG GAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCT
genomic: GCTGTTCAATCAATTCCTTACTTTGCTTCTGGCCTGAAGGGAGTTGCCAGgtaaaaagct ... gtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCT
EST:
gi|67020139|gb|CO448888.1|CO448888EST: GGGAGTTTCCAG GAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCT
genomic: GGGAGTTGCCAGgtaaaaagct ... gtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatttctctatgcactgataggctacttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG
aatctaat 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 |
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ttgatcccccacttgtatgcagctatctgaccttagatgcatttaaaatttctctatgcactgataggctacttacgacaatctaatgttgtaaatgcagGAGCATGCCAACATCAGCTGCCCTTGATGTTGTTGCAAAGAATTTGAATCTCAAGTTCTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA