Sequence
atgc intronic sequence ATGC exonic sequenceGGCCTACATGTTTGTCCACGATGGATTGGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAAgtaattatatttttcattttcatatgtttagcaaagcaaattagagaaggaaggtgttatgcttttgtgtgtttgtttctgtttcttgtggaataggatctgaattatgatctcatgaccttgaatttttgtggtctgtattcag
Basic information
species | Glycine max |
transcript | GLYMA20G30230.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G30230.2 (Glycine max), 5'ss of exon 5
lower sequence: AT4G25700.1 (Arabidopsis thaliana), 5'ss of exon 5
GGCCTACATGTTTGTCCACGATGGATTGGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAAgtaattatatttttcattttcatatgtttagcaaagcaaattagagaaggaaggtgtta-tgcttttgtgtgtttgtttctgtttcttgtggaataggatctgaattatgatctcatgaccttgaatttttgtggtctgtattcag
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CGCCTACATGTTTGTCCACGATGGTCTCGTGCACAAGCGTTTCCCTGTAGGTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaa---acggtttc-----tttcccaaaatagattttattttattattattagtatcttaataatcatatttttattgttattg--atcgtgcatga-ttatg-tttcag-----------------------------
upper sequence: GLYMA20G30230.2 (Glycine max), 5'ss of exon 5
lower sequence: AT5G52570.2 (Arabidopsis thaliana), 5'ss of exon 3
GGCCTACATGTTTGTCCACGATGGATTGGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAAgtaattatatttttcattttcatatgtttagcaaagcaaattagagaaggaaggtgttatgcttttgtgtgtttgtttctgtttcttgtggaataggatctgaattatgatctcatgaccttgaatttttgtggtctgtattcag
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GGCTTACATGTTCGTTCACGATGGACTTGTGCACAAGAGATTCCCTGTAGGTCCCATTGCCAACGTTCCTTACCTTCGAAAGGTCGCCGCCGCTCACCAGgt----------tttaataccat-cgttaaccaacgctctt---------aacgt-tcttcattccatatagttattattgattt-------acaaaattttgctaacgatt--atggctttatctttttag-------------
upper sequence: GLYMA20G30230.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv16s0050g01090.t01 (Vitis vinifera), 5'ss of exon 5
GGCCTACATGTTTGTCCACGATGGATTGGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAAgtaattatatttttcattttcatatgtttagcaaagcaaattagagaaggaaggtgttatgcttttgtgtgtttgtttctgtttcttgtggaataggatctgaattatgatctcatgaccttgaatttttgtggtctgtattcag
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GGCCTACATGTTTGTCCACGATGGTCTCGTCCACAGGAGATTTCCAGTGGGGCCCATTGCGAACGTGCCCTATTTCAGACGCGTAGCTGCAGCACACCAAgtaagcatg-----caccaccacacacacgatccttcattttt-----------ctttttcttttccttttcctttttttgttttttttt---ttaattttcaactg-aatccaacggcct-gatcttctgatgcatggtctcagMapped 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|120492844|gb|EH221011.1|EH221011EST: GTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAA CTCCACCATTCGGACAAATTCAACGGGGTGCCATATGGCTTGTTTTTGGGA
genomic: GTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAAgtaattatat ... ctgtattcagCTCCACCATTCGGACAAATTCAACGGGGTGCCATATGGCTTGTTTTTGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCCTACATGTTTGTCCACGATGGATTGGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAAgtaattatatttttcattttcatatgtttagcaaagcaaattagagaaggaaggtgttatgcttttgtgtgtttgtttctgtttcttgtggaataggatctgaattatgatctcatgaccttgaatttttgtggtctgtattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT