Sequence
atgc intronic sequence ATGC exonic sequencegtaagccaagaaagagtggggaaccgagcgcaaaagcaaagcgaccgagagtgtgctttttgggctagcttcagttccatcatgcacatcgatatgctaaaagccgtgtcgattgtttcttttccggatcttgatttggcgctgttgcgtgttgggcgcagTGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGCCTGGGCGGTGCCGCCGGACGGACGGCAAGAAATGGCGGTGCTCCAGGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G178261_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g51970.1 (Oryza sativa), 3'ss of exon 1
gtaagccaagaaagagtggggaaccgagcgcaaaagcaaagcgaccgagagtgtgctttttgggctagcttcagttccatcatgcac--atcgatatgctaaaagccgtgtcgattgtttcttttccggatcttgatttggcgctgttgcgtgttgggcgcagTGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGCCTGGGCGGTGCCGCCGGACGGACGGCAAGAAATGGCGGTGCTCCAGGGA
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gtaagccaagaaa---tgggaaa--------ggaagcagatcaaccgaa----tgctttcttggctttagttcctttcatcatggactgatatttatgataaaagctgttccattccctgatcttggttgcattgcccttggttgggtttttgctt--tgcagTGGGATGGGGATCTTTCCAGCTGGGCTACTCCGGCAGCGCGGATCCGGAGCCCGGCCGGTGCCGCCGGACGGACGGCAAGAAATGGCGGTGCTCGAGGGA
upper sequence: GRMZM2G178261_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ24024 (Selaginella moellendorffii), 3'ss of exon 2
gtaagccaagaaagagtggggaaccgagcgcaaaagcaaagcgaccgagagtgtgctttttgggctagcttcagttccatcatgca-catcgatatgctaaaagccgtgtcgattgtttcttttccggatcttgatttggcgctgttgcgtgttgggcgcagTGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGCCTGGGCGGTGCCGCCGGACGGACGGCAAGAAATGGCGGTGCTCCAGGGA
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----------------------------------------gtgagtgcctgctgcctttctcccttcacttcactgctcgactgcctcctcgctgttctcagcacc-------ttgcaccactggcaactctaaa---gatctccttgctt-tcctgtgcagTGGGCTGGGGAAACTTCCACCTTGGAATTCCGAACAATCCCGACCCGGAGCCTGGTCGGTGCCGACGAACAGACGGCAAGAAGTGGAGGTGCTCCAGGGA
upper sequence: GRMZM2G178261_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ24588 (Selaginella moellendorffii), 3'ss of exon 2
gtaagccaagaaagagtggggaaccgagcgcaaaagcaaagcgaccgagagtgtgctttttgggctagcttcagttccatcatgca-catcgatatgctaaaagccgtgtcgattgtttcttttccggatcttgatttggcgctgttgcgtgttgggcgcagTGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGCCTGGGCGGTGCCGCCGGACGGACGGCAAGAAATGGCGGTGCTCCAGGGA
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----------------------------------------gtgagtgcctgctgcctttctcccttcacttcactgctcgactgcctcctcgccgttctcagcacc-------ttgcaccactggcaactctaaa---gatctccttgctt-tcctgtgcagTGGGCTGGGGAAACTTTCACCTTGGAATTCCGAACAATCCCGACCCGGAGCCTGGTCGGTGCCGACGAACAGACGGCAAGAAGTGGAGGTGCTCCAGGGAMapped 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|211150886|gb|FL325066.1|FL325066EST: GAGCCTCGCTGCGTCTCCCTACCCGCCTTCATACTTCGGCACGAGCACAT TGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGC
genomic: GAGCCTCGCAGCGTCTCCCTACCCGCCTTCATACTTCGGCACGAGCACATgtaagccaag ... ttgggcgcagTGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcgattgtttcttttccggatcttgatttggcgctgttgcgtgttgggcgcagTGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGCCTGGGCGGTGCCGCCGGACGGACGGCAAGAAATGGCGGTGCTCCAGGGA
tcttgat putative branch site (score: 4)
tttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagccaagaaagagtggggaaccgagcgcaaaagcaaagcgaccgagagtgtgctttttgggctagcttcagttccatcatgcacatcgatatgctaaaagccgtgtcgattgtttcttttccggatcttgatttggcgctgttgcgtgttgggcgcagTGGGGTGGGGCTCTTTCCAGCTGGGCTACTCCGGCAATGCGGATCTGGAGCCTGGGCGGTGCCGCCGGACGGACGGCAAGAAATGGCGGTGCTCCAGGGA
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