Sequence
atgc intronic sequence ATGC exonic sequencegtaagcacatccgttctctctggtcactgtcgtttttcgcgtcgtctctccggatctgaccttctgttttcggttcgcagCCCGGATCAAGGTGCACGAGCTGCGCGGAAAGAGCAAGACGGATCTGCAAGCGCAGCTCAAGGAGCTTAAATCGGAGCTCTCCCTCCTACGCGTCGCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G010599_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g30730.1 (Oryza sativa), 3'ss of exon 1
gtaagcacatccgttctctc------------tggtcactgtcgtttttcgcgtc---gtctctccggatctgaccttctgtttt-cggttcgcagCCCGGATCAAGGTGCACGAGCTGCGCGGAAAGAGCAAGACGGATCTGCAAGCGCAGCTCAAGGAGCTTAAATCGGAGCTCTCCCTCCTACGCGTCGCCAA
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gtaagcctccccctcctctccctctctccggttcatctcgattagttttagctctcaatcccttccggatctgaccgtttcttggacaaatgtcagCCCGGATCAAGGTGCACGAGCTCCGGGGGAAGAACAAGGCGGAGCTGCAGGCCCAGCTCAAGGACCTCAAGGCGGAGCTCTCCCTCCTCCGCGTCGCCAA
upper sequence: GRMZM2G010599_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g30050.1 (Oryza sativa), 3'ss of exon 1
gtaagcacatccgttctctctggtcactgtcgtttttcgcgtcgtctctccggatctgaccttctgttttcggttcgcagCCCGGATCAAGGTGCACGAGCTGCGCGGAAAGAGCAAGACGGATCTGCAAGCGCAGCTCAAGGAGCTTAAATCGGAGCTCTCCCTCCTACGCGTCGCCAA
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gtaagctacaacattcc-----gttcttctctcctcccgc-tcgcctg--cggatctaaccgtgcgtgtgtggt--gcagCCCGGATCAAGGTCGACGAGCTACGGGGGAAGAACAAGGCGGAGCTGCAGGCCCAGCTCAAGGACCTCAAGGCGGAGCTCTCCCTCCTCCGCGTCGCCAAMapped 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|211441107|gb|FL033103.1|FL033103EST: TTTTCATCTCATTCGGCGCCGCGGCACCCCCTGCTCGTCACTCGCGATGG CCCGGATCAAGGTGCACGAGCTGCGCGGAAAGAGCAAGACGGATCTGCAAG
genomic: TTTTCATCTCATTCGGCGCCGCGGCACCCCCTGCTCGTCACTCGCGATGGgtaagcacat ... cggttcgcagCCCGGATCAAGGTGCACGAGCTGCGCGGAAAGAGCAAGACGGATCTGCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtcgtttttcgcgtcgtctctccggatctgaccttctgttttcggttcgcagCCCGGATCAAGGTGCACGAGCTGCGCGGAAAGAGCAAGACGGATCTGCAAGCGCAGCTCAAGGAGCTTAAATCGGAGCTCTCCCTCCTACGCGTCGCCAA
atctgac putative branch site (score: 3)
ccttctgttttc CT-rich tract
ttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcacatccgttctctctggtcactgtcgtttttcgcgtcgtctctccggatctgaccttctgttttcggttcgcagCCCGGATCAAGGTGCACGAGCTGCGCGGAAAGAGCAAGACGGATCTGCAAGCGCAGCTCAAGGAGCTTAAATCGGAGCTCTCCCTCCTACGCGTCGCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT