Sequence
atgc intronic sequence ATGC exonic sequence...atcaaagcagtactagcaattaattgaaaggtgactggactgaacgaacagcatcaacagtaattagtaatggtttgcacgcatatatatatacacgcagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149481_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 3'ss of exon 5
--atcaaagcagt-actagcaattaattgaaaggtgactggactgaacgaacagcatcaacagtaattagtaatggt-ttgcacgcatatatatatacacgcagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC
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cagttacatcgatcgtttacagcagcgtcaatactgtaataattgaccaaactg--tcaa-agcagtttgtgacaacattacgtgtg-attttggtgcgcgcagGGAGATCATGCACGCGATGTGGAGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCGAGC
upper sequence: GRMZM2G149481_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 5
atcaaagcagtactagcaattaattgaaaggtgactggactgaacgaacagcatcaacagtaattag-taatggtttgcacgca---tatatatatacacgcagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC-
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----gtgatatgctgctaattaattagttaattttgagagaaatgaagttggctagctagtaatgagacaaatatattaatgagaattgtactggtaacaccagGGAGATAATGCACGCGATGTGGAAGCCTCAAAAGTTCAAGGCCTTATACTTACTGGCAACCCTGTATGTGCTGACACTGACGCTTCCATCGGCAGC-AGCA
upper sequence: GRMZM2G149481_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 5
atcaaagcagtactagcaatt--aattgaaaggtgactggactgaacgaacagcatcaacagtaattagtaatggtttgcacgcatatatatatacacg-cagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC-
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attta--taatttaagcttttgcaattgtggtgatatgctactaattaattagtttcgagagtataagacaaatatattaatg-atacttgtactggtaacagGGAGATAATGCACGCGATGTGGAAGCCTCAAAAGTTCAAGGCCTTATACTTACTGGCAACCCTGTATGTGCTGACACTGACGCTTCCATCGGCAGC-AGCA
upper sequence: GRMZM2G149481_T04 (Zea mays), 3'ss of exon 4
lower sequence: EFJ34222 (Selaginella moellendorffii), 3'ss of exon 5
atcaaagcagtactagcaattaattgaaaggtgactggactgaacgaacagcatcaacagtaattagtaatggtttgcacgcatatatatatacacgcagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC-
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----------------------------gtaagctttcgcttctttcgctgttcttgcatggatcgataggcatcttctcataaactttgatcttcccagGGAGATCATGCACGCGATGTGGAAGCCCCAAAAGTTCAAGTGGGTCTATCTCGTCGCTACCATCTACGTCTTCACCTTGACACTCCCGTCCGCCAC-GGCA
upper sequence: GRMZM2G149481_T04 (Zea mays), 3'ss of exon 4
lower sequence: EFJ21839 (Selaginella moellendorffii), 3'ss of exon 5
atcaaagcagtactagcaattaattgaaaggtgactggactgaacgaaca-gcatcaacag--taattagtaatggtttgcacgcatatatatatacacgcagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC-
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-------------------gtaagctttcgcttctttcgctgttcttgcatggatcgataggctatgttgtcatc-ttttctcataaactttgatcttcccagGGAGATCATGCACGCGATGTGGAAGCCCCAAAAGTTCAAGTGGGTCTATCTCGTCGCTACCATCTACGTCTTCACCTTGACACTCCCGTCCGCCAC-GGCAMapped 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|71443461|gb|DR824511.1|DR824511EST: ACCGGGGCCACAAACATTCTCTACACTTTCGGAGGGCACGCTGTTACCGT GGAGATCATGCACGCGATGTG
genomic: ACCGGGGCCACAAACATTCTCTACACTTTCGGAGGGCACGCTGTTACCGTgtaaggagac ... atacacgcagGGAGATCATGCACGCGATGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacagcatcaacagtaattagtaatggtttgcacgcatatatatatacacgcagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC
atatatatataca 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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atcaaagcagtactagcaattaattgaaaggtgactggactgaacgaacagcatcaacagtaattagtaatggtttgcacgcatatatatatacacgcagGGAGATCATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCCAGC
- - - gcagtac
- - - - - - - - - - - - - - - - - -tggactg
- - - - - - - - - - - - - - - - - - - - - - - - cagcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcacgc