Sequence
atgc intronic sequence ATGC exonic sequencegtgactgatcctgcccgttttattgatatagccttggacaccataatactttttcaacttttccatttgaggcaatgcctctcttaaagttgactttggaagcatgtttttagctggttagcaaaattgctatcactttaagagttaatgaaatcttcattccagGTGCCCAGTATGCTTGGCTTAAGAAAGATTTGCATCAAGTTGACCGCAGTGTGACCCCTTGGCTGGTAGCTGCATGGCACCCACCTTGGTATAATAGCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0051g00640.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G014193_T03 (Zea mays), 3'ss of exon 2
gtgactgatcctgcccgttttattgatatagccttggacaccataatactttttcaacttttccatttgaggcaatgcctctcttaaagttgactttggaagcatgtttttagctg-gttagcaaaattgctatcactttaagagttaatgaaatcttcattccagGTGCCCAGTATGCTTGGCTTAAGAAAGATTTGCATCAAGTTGACCGCAGTGTGACCCCTTGGCTGGTAGCTGCATGGCACCCACCTTGGTATAATAGCTA
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-----------gtaacaatttatcgctagtactgttt-catcattatatacacttgaatatgataagcaatgtagtggtactgtcactcgaaccctgtagagcccattttctttagagctgacgaagtagc----atttt----gctatatgtgcattgtctgcagGAGTTCAGTACTCGTGGTTGGAAAAGGATTTGCAGAGGGTTGATCGACGAGCCACCCCTTGGGTCGTGGCTGCTTGGCACCCACCTTGGTATAACAGCTA
upper sequence: Vv05s0051g00640.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G03220.1 (Glycine max), 3'ss of exon 4
gtgactgatcctgcccgttttattgatatagccttggacaccataatactttttcaacttttccatttgaggcaatgcctctcttaaagttgactttggaagcatgtttttagctggttagcaaaattgctatcactttaagagttaatgaaatcttcattccagGTGCCCAGTATGCTTGGCTTAAGAAAGATTTGCATCAAGTTGACCGCAGTGTGACCCCTTGGCTGGTAGCTGCATGGCACCCACCTTGGTATAATAGCTA
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-------------------------------------ggaccaaaatgggtatttaccctt--caccttatgtagacc---------agtcgatgc-----gtataattttagatggttg---aacttaatgt---------gtttcatcggatcttcaatccagGTGCACAGTTTGCTTGGCTGAAGAAAGATCTGCAAAGTGTAGACCGTAGTGTAACCCCTTGGTTAGTAGCTGCATGGCATTCTCCTTGGTATAACAGTTAMapped 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|71884280|gb|DT033335.1|DT033335EST: TGGAGTACATTTCATAATGTTGGGAGCATATGTTGACTACAATCGCACTG GTGCCCAGTATGCTTGGCTTAAGAAAGATTTGCATCAAGTTGACCGCAGTG
genomic: TGGAGTACATTTCATAATGTTGGGAGCATATGTTGACTACAATCGCACTGgtgactgatc ... ttcattccagGTGCCCAGTATGCTTGGCTTAAGAAAGATTTGCATCAAGTTGACCGCAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagctggttagcaaaattgctatcactttaagagttaatgaaatcttcattccagGTGCCCAGTATGCTTGGCTTAAGAAAGATTTGCATCAAGTTGACCGCAGTGTGACCCCTTGGCTGGTAGCTGCATGGCACCCACCTTGGTATAATAGCTA
agttaat putative branch site (score: 4)
tcttcattcc putative PPT
ttaatgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgactgatcctgcccgttttattgatatagccttggacaccataatactttttcaacttttccatttgaggcaatgcctctcttaaagttgactttggaagcatgtttttagctggttagcaaaattgctatcactttaagagttaatgaaatcttcattccagGTGCCCAGTATGCTTGGCTTAAGAAAGATTTGCATCAAGTTGACCGCAGTGTGACCCCTTGGCTGGTAGCTGCATGGCACCCACCTTGGTATAATAGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC