Sequence
atgc intronic sequence ATGC exonic sequence...tagatcaatcttcacttgcaaacaggccattactctgcaatttattgattctttacacaatcatatgacctgtgctattttcttttcatgacacaattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCAAATAGGGTTGCTGTTGTGGTCGCAAACGAGTGGAAAGATGCTAATGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G832989_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g50320.2 (Oryza sativa), 3'ss of exon 6
tagatcaatcttcact--tgcaaacaggccattactctgcaatttattgattctttacacaatcatat-gacctgtgctattttcttttcatgacacaattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCAAATAGGGTTGCTGTTGTGGTCGCAAACGAGTGGAAAGATGCTAATGACA
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-gtaacatcctttactgttgctttcggataatc---------ttcactg-ttctgtacgcaaaaaagttgacccatgctaatctctaaccatggcacacttagGAGGAAAGAAAAATTCTTGACCGTGAGCTTGCGCGGGCAAAAGTTACAGCAAACAGAGTTGCTGTTGTAGTTGCAAATGAGTGGAAAGATGCTAATGACA
upper sequence: GRMZM5G832989_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 6
----------tagatcaatcttcacttgcaaacaggc-----cattactctgcaatttattgattctttacacaatcatatgacctgtgctattttcttttcatgacacaattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCAAATAGGGTTGCTGTTGTGGTCGCAAACGAGTGGAAAGATGCTAATGACA
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gtaatgtgtgaaaagtcttcagcatgttcaaactcacatttgctttattcttgattgtactgcctctagttaagatcatatttatttttgcacggtttatttgacattct-ttagGAGGAAAGAAAGACTCTAGACAGGGAGTTGGCTCGTGCCAAGGTAACAGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATA
upper sequence: GRMZM5G832989_T01 (Zea mays), 3'ss of exon 6
lower sequence: PP1S136_188V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------tagatcaatcttcacttgcaaacaggccattactctgcaatttattg-attctttacacaatcatatgacctgtgctattttc-----------------ttttcatgacac-------aattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCAAATAGGGTTGCTGTTGTGGTCGCAAACGAGTGGAAAGATGCTAATGACA
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gtatgactaatgatacgcgtagttgagttctttttcgtatgattgccatgaggagtccctatgctggattttacaccgaatactatg-cctttttaattttcaacatcattaacatatatttggatgatatgcatttgaaatagGAAGGGAAGAAGACGTTGGAGAGAGAGCTTGCACGAGCGAAAATCACAGCTAACAGGGTTGCAGTTGTGGTTGCTAACGAGTGGAAGGATGCAAATGACAMapped 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|9794283|gb|BE552591.1|BE552591EST: CAGCTGCCAATGTCGTTAGGGATTACCAACGAAAAGTTCAAGAAATGAAT GAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCA
genomic: CAGCTGCCAATGTCGTTAGGGATTACCAACGAAAAGTTCAAGAAATGAATgtaacctact ... acacaattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCA
EST:
gi|67041884|gb|CO468139.1|CO468139EST: GGATTACCAACGAAAAGTTCAAGAAATGAAT GAAGAAAAGAAAATTTGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCA
genomic: GGATTACCAACGAAAAGTTCAAGAAATGAATgtaacctact ... acacaattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattctttacacaatcatatgacctgtgctattttcttttcatgacacaattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCAAATAGGGTTGCTGTTGTGGTCGCAAACGAGTGGAAAGATGCTAATGACA
tattgat putative branch site (score: 3)
tattttcttttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagatcaatcttcacttgcaaacaggccattactctgcaatttattgattctttacacaatcatatgacctgtgctattttcttttcatgacacaattagGAAGAAAAGAAAATTCGTGACCGTGAACTTGCTCGAGCTAAAGTTACTGCAAATAGGGTTGCTGTTGTGGTCGCAAACGAGTGGAAAGATGCTAATGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG