Sequence
atgc intronic sequence ATGC exonic sequencegtgattatcatgtctttgttgatacctccaacccattgtatcgtgagctcattttcttgttttcttatgcatgctatattacttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTCCTTGACGAAGCTGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g34910.1 (Oryza sativa), 3'ss of exon 3
gtgattatcatgtctttgttgatacctccaacccattgtatcgtgagctcattttcttgttttcttatgcatgctatat----tacttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTCCTTGACGAAGCTGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCG
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gtagttactattgctttgctgatacttcttgac--ttggcccat-agtctgttaggttctattctcatgtttgctgcatggttttcttgcacagGACTTTGTTGAAAAGGGAACCCTCAATTTTAGGTCTTTGAAATTCCGTGTCCTTGATGAGGCTGATGAGATGCTTAATATGGGCTTCGTTGATGATGTTG
upper sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G29060.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------gtgattatcatgtct---ttgttgatacctccaacccattgtatcgtgag-ctcattttcttgttttcttatgcatgctatat------tacttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTCCTTGACGAAGCTGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCG
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gtaagtgcattaacactagttttgattatgtgtagctagtttgttatctccttgtatgaatgtacattatttgcaaaaatagattgtgcgaaagctagactttgtgtgttttaagacaaaaaatgagaatattttgtgatttccatctgggatgtattggtgcagGATCATATCGAGAAAGGGAATATTGACCTGAGCCAACTAAAGTTTCGTGTCCTTGACGAAGCCGATGAAATGCTGAGGATGGGTTTTGTTGAAGATGTTG
upper sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S67_231V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------------------gtgatta--tcatgtctttgttgatacctccaacccattgtatcg---tgagctcattttcttgttttcttatgcatgctatattacttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTCCTTGACGAAGCTGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCG
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gtatctcacagttttttcgtccttttcatcagtgcctaagtaatgtcttc-ttaatgtttgcaaataactgcattcattttacatagcatttcggcctaggctgacacactct-caactgctgcagGATCACTTCGAGAGGGGCACTTTGAACTTGAAATCTTTAAAGTTCCGCATTCTCGACGAAGCCGATGAGATGCTTAACATGGGATTTGTGGATGATGTGG
upper sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ23995 (Selaginella moellendorffii), 3'ss of exon 3
gtgattatcatgtctttgttgatacctccaacccattgtatcgtgagctcattttcttgttttcttatgcatgctatattacttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTCCTTGACGAAGCTGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCG
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-------------------------------------gtaatggattttgttgttctggacatccttaccaggct---tcggttttgcagGATTTCCTGGACCGCGGTGACTTGAACTTGAAAACTTTGAAGTTCCGAGTCCTTGATGAGGCCGATGAGATGCTTAACATGGGATTTGTGGAGGCTGTTGMapped 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|56691642|gb|CX129545.1|CX129545EST: CATTGAGAAGAGGTGTGGACATTGTTGTTGGAACTCCAGGTCGTATCAAG GATTTTATTGTAAAAGGAACTCTCACCTTGAAATGCTTGAAGTTCCGTGTC
genomic: CATTGAGAAGAGGCGTGGACATTGTTGTTGGAACTCCTGGTCGTATCAAGgtgattatca ... acttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtatcgtgagctcattttcttgttttcttatgcatgctatattacttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTCCTTGACGAAGCTGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCG
tatattactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattatcatgtctttgttgatacctccaacccattgtatcgtgagctcattttcttgttttcttatgcatgctatattacttgtgcagGATTTTATTGTAAAAGGAACTCTCAACTTGAAATGCTTGAAGTTCCGTGTCCTTGACGAAGCTGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG