Sequence
atgc intronic sequence ATGC exonic sequencegtgaaaaaaatgctacttctcatgcagaagatcaaatttcgtaaggattgaagcatccgcttaatgtgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 8
gtgaaaaaaatgctacttctcatgcagaagatcaaatttcgtaaggattgaagcatccgcttaatgtgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
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gt-aaacaagttccatcttttatg---aagataacatgtc-tgaggattaaagcattagtttaatctgttg----tactgcactacagACATGGCCTGTGCGTTCACCAAGGCCTGTTATGGAAAAACTTGCTGCAGATACACCTCTTCTTACAGGACAG
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 8
-----------------------gtgaaaaaaatgctacttctcatgcagaagatcaaatttcgtaaggattga-----agcatccgcttaatgtgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
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gtttctagccatttattttgttcatcatttcactgtagttgcttcattgaagtattggtattccttatgattatcctacattacaacttccttgcgtgtactttacccattttcagACTTGGCCTGTACGTACACCCAGGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCTTCTTACTGGTCAG
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 8
-----------------------gtgaaaaaaatgctacttctcatgcagaagatcaaatttcgtaaggattga-----agcatccgcttaatgtgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
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gtttctagccatttatttcgttcaccacttaattgtagttacttcattaaagtattggtactccttatgattatcctacattacaacttccttgtgtgtactttacccattttcagACTTGGCCCGTACGTACACCAAGGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCTTCTTACTGGTCAG
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 8
gtgaaaaaaatgctacttctcatgcagaagatcaaatttcg-taaggattg-aagcatccgcttaatg-------tgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
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-----gttattggtattttctatgcattaccttaaagtaaaatctgcatggtaagcatctgattaatgactcctttttttattttacctttcttcagACTTGGCCTGTCCGTACACCTAGGCCTGTTGCCTCAAAGCTTGCTGCTGATACACCTCTCCTTACTGGGCAG
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 8
--------------------gtgaaaaaaatgcta---cttctcatgcagaagatcaaatttcgtaaggattgaagcatccgcttaatgtgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
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gttattagattttttatttcatggatctatttttggagcttaacattaactaaatccttgtgtccaaaaatggcaattcttattttg-gtttgtgtttcatccatatatagACTTGGCCTGTACGTACACCTAGGCCTGTTGCGTCAAAGCTGGCTGCTGATACCCCACTACTTACAGGACAGMapped 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|116813623|gb|EC856086.1|EC856086EST: TGCTAGAATTGGAATTTCAGGGCATAAAAAAGAATTTTACCATGCTTCAG ACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGAT
genomic: TGCTAGAATTGGAATTTCAGGGCATAAAAAAGAATTTTACCATGCTTCAGgtgaaaaaaa ... ttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatttcgtaaggattgaagcatccgcttaatgtgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
gtttaat putative branch site (score: 4)
ttcatttcctt CT-rich tract
ttaatgtgtttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaaaaaatgctacttctcatgcagaagatcaaatttcgtaaggattgaagcatccgcttaatgtgtttaattcatttccttgcagACATGGCCTGTGCGTTCACCAAGGCCTGTTGCGTCGAAGCTTGCTGCGGATACACCTCTTCTGACAGGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC