Sequence
atgc intronic sequence ATGC exonic sequence...aattatttttatattatagcgtcaaggtagatgatatctataatacgttatggattacatgctatagttaacacacggtgcttacttgtacaatgttcagGTTTTTGCTCAGTTGTTAAAAGCTCCACATGAGGAAGCTAATTTAATAATAAAGGAGCGATTTCCTGTACCCCGTTTGGTAGTCTGTGATCAATATGGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063775_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g28610.1 (Oryza sativa), 3'ss of exon 12
aattatttttatattatagcgtcaaggtagatgat-atctataatacgttatggattacatgctatagttaacacacggtgctta--cttgtacaatgttcagGTTTTTGCTCAGTTGTTAAAAGCTCCACATGAGGAAGCTAATTTAATAATAAAGGAGCGATTTCCTGTACCCCGTTTGGTAGTCTGTGATCAATATGGAT
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-tttcttcatatattaggg-gctaacacagatttttatctaagctgcatttaaagtgcagtagtgca-ttgccatccagtgctgaacctttcatgatattcagGTATTTGCCCAATTGTTAAAATCTCCACATGAGGAAGCTGATACTATAATCAGGGAGCGGTTTCCTGTACCCCGTTTGGTCGTCTGTGATCAGTATGGGT
upper sequence: GRMZM2G063775_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 10
-aattatttttatattatagcgtcaagg--tagatgatatctataatacgttatggattacatgctatagttaacacacggtgcttacttgtacaatgtt-cagGTTTTTGCTCAGTTGTTAAAAGCTCCACATGAGGAAGCTAATTTAATAATAAAGGAGCGATTTCCTGTACCCCGTTTGGTAGTCTGTGATCAATATGGAT
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gtgttttcttgaggtcataatgtctagaactgcactgtgtcaccaatgt-tcttacctttca---cattgacaatatatttgattaagtaactaaattttgcagGCATTTGCTCAATTGCTACGAGCTCCTCATGATGATGCTGATTTAATTATAAAGGAGAGATTTCCTGTACCTCGCCTGGTTGTTTGTGATCAGCATGGCTMapped 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|33095318|gb|CF055312.1|CF055312EST: CCATTGCGCAGTGGCGAAATGCTGGCTAACAAGATCAAGAAGGTCACGAG GTTTTTGCTCAGTTGTTAAAAGCTCCACATGAGGGAGCTAATTTAATAATA
genomic: CCATTGCGCAGTGGCGAAATGCTGGCTACCAAGATCAAGAAGGTCACGAGgtaacctgtc ... caatgttcagGTTTTTGCTCAGTTGTTAAAAGCTCCACATGAGGAAGCTAATTTAATAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgttatggattacatgctatagttaacacacggtgcttacttgtacaatgttcagGTTTTTGCTCAGTTGTTAAAAGCTCCACATGAGGAAGCTAATTTAATAATAAAGGAGCGATTTCCTGTACCCCGTTTGGTAGTCTGTGATCAATATGGAT
tgcttac putative branch site (score: 2)
tatagttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattatttttatattatagcgtcaaggtagatgatatctataatacgttatggattacatgctatagttaacacacggtgcttacttgtacaatgttcagGTTTTTGCTCAGTTGTTAAAAGCTCCACATGAGGAAGCTAATTTAATAATAAAGGAGCGATTTCCTGTACCCCGTTTGGTAGTCTGTGATCAATATGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tacatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacacac