Sequence
atgc intronic sequence ATGC exonic sequence...cacactagctagggctgtgtgatgggaggcggattcgatttctcgctctgctcaacagtctcacccctatagctatacgtggttctcctcctgcctgcagTGAGCTACTACGCCTACTACGGCAAGAAACTGGACCCGGAGCCGTGGCGGTGCCGCCGCACCGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCGCACCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G098594_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g02560.3 (Oryza sativa), 3'ss of exon 1
cacactagctagggctgtgtgatgggaggcggattcgattt---ctcgctctgctcaacagtct-cacccctatag-ctatacgtggttctcctcctgcc--tgcagTGAGCTACTACGCCTACTACGGCAAGAAACTGGACCCGGAGCCGTGGCGGTGCCGCCGCACCGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCGCACCC
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-------gttgatgaaatgttgaagtggtgcattttgatctagttttaatatgaacaatgatgaatgctgatatggattcaatgtgcctgtgctcatgtcactgcagTGAGCTATTATGCCTACTATGGCAAGAAGCTTGACCCTGAGCCGTGGCGTTGCCGCCGCACCGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCGCACCC
upper sequence: GRMZM2G098594_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ24024 (Selaginella moellendorffii), 3'ss of exon 2
-------cacactagctagggctgtgtgatgggaggcggattcgatttctcgctctgctcaacagtct-caccccta-tagctatacgtggttctcctcctgcctg--cagTGAGCTACT---ACGCCTACTACGGCA------AGAAACTGGACCCGGAGCCGTGGCGGTGCCGCCGCACCGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCGCACCC
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gtgagtgcctgctgcctttctcccttcacttcactgctcgactgcctcctcgctgttctcagcaccttgcaccactggcaactctaaagatctccttgctttcctgtgcagTGGGCTGGGGAAACTTCCACCTTGGAATTCCGAACAATCCCGACCCGGAGCCTGGTCGGTGCCGACGAACAGACGGCAAGAAGTGGAGGTGCTCCAGGGA---------
upper sequence: GRMZM2G098594_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ24588 (Selaginella moellendorffii), 3'ss of exon 2
-------cacactagctagggctgtgtgatgggaggcggattcgatttctcgctctgctcaacagtct-caccccta-tagctatacgtggttctcctcctgcctg--cagTGAGCTACT---ACGCCTACTACGGCA------AGAAACTGGACCCGGAGCCGTGGCGGTGCCGCCGCACCGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCGCACCC
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gtgagtgcctgctgcctttctcccttcacttcactgctcgactgcctcctcgccgttctcagcaccttgcaccactggcaactctaaagatctccttgctttcctgtgcagTGGGCTGGGGAAACTTTCACCTTGGAATTCCGAACAATCCCGACCCGGAGCCTGGTCGGTGCCGACGAACAGACGGCAAGAAGTGGAGGTGCTCCAGGGA---------Mapped 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|74241183|gb|DT649097.1|DT649097EST: CGCCGGCCCCGCCGCCGCGTCGCCCTTCTACCACCAACACCACCCGTCCC TGAGCTACTACGCCTACTACGGCAAGAAACTGGACCCGGAGCCGTGGCGGT
genomic: CGCCGGCCCCGCCGCCGCGTCGCCCTTCTACCACCAACACCACCCGTCCCgtgagctctc ... ctgcctgcagTGAGCTACTACGCCTACTACGGCAAGAAACTGGACCCGGAGCCGTGGCGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctgctcaacagtctcacccctatagctatacgtggttctcctcctgcctgcagTGAGCTACTACGCCTACTACGGCAAGAAACTGGACCCGGAGCCGTGGCGGTGCCGCCGCACCGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCGCACCC
gtctcac putative branch site (score: 3)
ttctcctcctgcctgc putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacactagctagggctgtgtgatgggaggcggattcgatttctcgctctgctcaacagtctcacccctatagctatacgtggttctcctcctgcctgcagTGAGCTACTACGCCTACTACGGCAAGAAACTGGACCCGGAGCCGTGGCGGTGCCGCCGCACCGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCGCACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG