Sequence
atgc intronic sequence ATGC exonic sequence...aattatcgctctttcttttattggaacatgcttctttgttgtactgctcataatttctacccgaacttgtgaataatgattttagtggtctgactgttagGCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G146514_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 2
aattatcgctctttcttttattggaacatgcttctttgttgtactgctcataatttctacccgaacttgtgaataatgattttagtggtct-gactgttagGCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAA
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-atattttcaaagctgtaagttggaaagcttatggaactcaccatttttgtgctactttctataaattcttacctttgatgtaaatggttttgatcatcagGCTGTTGCTGCTGCAAGGATGAAGGGGGAATATCCTCAAAGAATTGGTCAACCTGAATGTCAA
upper sequence: GRMZM2G146514_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g21700.1 (Oryza sativa), 3'ss of exon 2
aattatcgctctttcttttattggaacatgcttctttgttgtactgctcataatttctacccgaacttgtgaataat-gattttagtggtctgactgttagGCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAA
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-tttgtttgaatgttagaaatcatatgattttgtttccttatcccttttttgcttgattctaatttttatctttacccaattttttttattgaattatcagGCTGTTGCTGCTGCAAGGATGAATGGAGAGTATCCTTATAGAGTTGGTCAACCTGAGTGTCAA
upper sequence: GRMZM2G146514_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT5G16540.3 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------aattatcgctctttcttttattggaacatgcttctttgttgtactgctcataatttctacccga--acttgtgaataatgattttagtggtctgactgttagGCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAA
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gtactgactctgtttctgtgtttgttctttcctctgtatcttgttgactcaaagtttgtagctttgagggtctgtgtgtgtgtgtgattacaagctgatgaatagtctcgta-tccaatttctagGTTATAGCAACTGCAAGGATTAAAGGAGAATACCCTGAAAGAATTGGTCAGCCTGAATGTGAGMapped 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|56691598|gb|CX129501.1|CX129501EST: GCAGGTTTGGGATGACCTGTAAATTTAATCACCCAGCAGACCGAAAGCTG GCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAG
genomic: GCAGGTTTGGGATGACCTGTAAATTTAATCACCCAGCAGACCGAAAGCTGgtaaaatcct ... tgactgttagGCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctcataatttctacccgaacttgtgaataatgattttagtggtctgactgttagGCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAA
gtctgac putative branch site (score: 3)
tgaataatgatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattatcgctctttcttttattggaacatgcttctttgttgtactgctcataatttctacccgaacttgtgaataatgattttagtggtctgactgttagGCTGTTGCTGCTGCAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA