Sequence
atgc intronic sequence ATGC exonic sequence...tagtgttgggcctgttggccgtgccctcccccctgccatgatatccttattagggcatattatcactgtgttctatttggtttactcctctttgctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTAGGCCATACTGCTCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G089630_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 3'ss of exon 4
-------tagtgttgggcctgttggccgtgccctcccccctgccatgatatccttattagggcatattatcactgtgttctatttggtttactcctctttgctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTAGGCCATACTGCTCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTT
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gtttgtctgctaatagaagtcttgtcccttttctacgcactttcatggcaaattttctta---acactattact-tgttttgtttc-tttgct--tctgtgctgcagTATGTTCATCACCTTCAAAGGAAGTACTCGCTTGGCTCATTCAACCTCTTGGGTCATACTGCTCCAGCTCAGGCAGCATCTTTACTAGTACTGGGGCCTT
upper sequence: GRMZM2G089630_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 3'ss of exon 4
tagtgttgggcctgttggccg-tgccctcccccctgccatgatatccttattagggcatattatcactgtgttctatttggtttactcctcttt---gctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTAGGCCATACTGCTCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTT
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-aacagaaattttgtccctcgctgctgttttcactttta--atggtgaggttttggataattagcact-tgttttattccagttatttttctttcatgctgcagTACGTTCATCACCTTCAAAAGAAGTACTCGCTTGGCTCATTCAACCTATTGGGTCATACTGCTCCAGCTCAGGCAGCATCCCTGTTAATACTGGGGCCTT
upper sequence: GRMZM2G089630_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT1G34020.1 (Arabidopsis thaliana), 3'ss of exon 4
tagtgttgggcctgttggccgtgccctcccccctgccatgatatc-cttattagggcatattatcactgtgttctatttggtttactcctctttgctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTAGGCCATACTGCTCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTT
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-----------gtaagtgttctgtgctcttacggagtaacatatcgtttctttgtttaagataatactaatattggtgtggttt----ttacatgatgcagTATGTACATTACCTTCAGCGCAAGTACTCGCTTAACTCATTCAACCTATTGGGACATACCGCTCCAGCCCAAGCCGCAACATTACTGGTAGTTGGCCCGT
upper sequence: GRMZM2G089630_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT4G09810.1 (Arabidopsis thaliana), 3'ss of exon 4
tagtgttgggcctgttggccgtgccctcccccctgccatgatatccttattagggcatattatcactgtgttctatttggtttactcctctttgctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTAGGCCATACTGCTCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTT
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--------------------gtaagttctttga-gctacggtttacacaaagattaagattaagatt----tacacaaagttt-ctctcttttgttgcagTATGTACATTATCTACAGCGAAAGTACTCGCTTAGCTCATTCAACCTACTGGGTCATACTGCTCCAGCTCAGGCTGCAACGTTATTGATAGTCGGTCCATMapped 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|148969061|gb|EE019781.2|EE019781EST: AGGTCCTGAGTTTGAAGTTTGAACCAGGCTTCTTGCAAAATTATGCAAGG TATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTA
genomic: AGGTCCTGAGTTTGAAGTTTGAACCAGGCTTCTTGCAAAATTATGCAAGGgtgggctttt ... tttgctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttattagggcatattatcactgtgttctatttggtttactcctctttgctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTAGGCCATACTGCTCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTT
tttactcctctttgct CT-rich tract
atattatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtgttgggcctgttggccgtgccctcccccctgccatgatatccttattagggcatattatcactgtgttctatttggtttactcctctttgctgcagTATGTTCACCACCTTCAATGGAAGTACTCGCTTGGCTCATTCAACCTCTTAGGCCATACTGCTCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTT
- -tgttggg
- - - - - cctgttg
- - - - - - - - -gccgtgc
- - - - - - - - - - - - - - - ccctgcc