Sequence
atgc intronic sequence ATGC exonic sequenceCAGCAAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGgtaaattgctttagttcagtgcctttcacgacatttctggaactattagtttttcttaattttttgttgatcattctgattgtgattgttggcctgtggatatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G55150.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 4
CAGCAAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGgtaaattgctttagttcagtgcctttcacgacatttctggaactattagtttttcttaattttttgttgatcattctgattgtgattgttggcctgtggatatag------
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CAGCAAGAGGCAACTAAGTTTGGTGCGTCATCAAAAATAAAAAGTACTTGCATATATGGTGGTGTTCCAAAAGGTCCTCAAGTTCGCGATCTTCAAAAAGgt---tctctttctttc----ttatgctaggaagttcaacaaccagaaggaatcttttgtactgcacgcatga----agtcatgaacaatgtttgaaggacattcagttgg
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G01260.1 (Glycine max), 5'ss of exon 4
CAGCAAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGgta--aattgctttagttcagtgcc-----tttcac--gacatttctggaactattagtttt--tcttaattttttgttgatcattctgattgtgattgttggcctgtggatatag----------------------------
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CAACAAGAGGCTACTAAATTTGGTGCATCATCTAGGATTAAGAGTACATGCATCTATGGTGGGGTTCCAAAGGGACCTCAGGTGCGTGATCTCCAGAAAGgtatgtattgaatta-tacaatgccatgagtttggttaaacaacttactgactgcttgttgcaatgttgcccctttgtacagtttttattttattttttcataatcatggattttattttacttctgttaatttttgtgattag
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G11880.1 (Glycine max), 5'ss of exon 4
CAGCAAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGgta-------aattgc-------------tttagttcagtgcctttcacgacatttctggaactattagtttttctta--attttttgttgatcattc--tgattgtgattgttggcctgtggatatag--------------
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CAACAAGAGGCTACTAAATTTGGTGCATCATCTAGGATTAAGAGTACATGCATCTATGGTGGGGTTCCAAAGGGACCTCAGGTGCGTGATCTCCGGAAAGgtatgtattgaattatacaatgccatgagtttggttaaacaacttactgactgcttgttgcaatgttgcccctttgtacagtttttattttattttttcataatcatggattttattttgcttctgttaatttttgtgattag
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G20670.1 (Glycine max), 5'ss of exon 4
CAGCAAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGgtaa--------------------attgctttagttcagtgcctttcacgacatttctggaactatt----agtttttcttaattttttgttgatcat---tctgattgtgat--tgttggcctgtggatatag
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CAACAAGAGACTACTAAATTTGGTGCATCATCTAGGATTAAGAGTACATGCATCTATGGTGGGGTTCCTAAGGGACCTCAGGTGCGTGATCTCCAGAAAGgtatgtattgaagtatacaaagccatgagtttggttaaacaacttactgactgcttgttgcccctttgtacaatttttattttctttttcatgatcatggattttattttgcttctgttaatttttgtgattagMapped 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|116454669|gb|EG497261.1|EG497261EST: CATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAG GTGTGGAGATCGTTATAGCTACTCCTGGGAGGTTAATAGACATGATGGAGT
genomic: CATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGgtaaattgct ... gtggatatagGTGTGGAGATCGTTATAGCTACTCCTGGGAGGTTAATAGACATGATGGAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGCAAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGgtaaattgctttagttcagtgcctttcacgacatttctggaactattagtttttcttaattttttgttgatcattctgattgtgattgttggcctgtggatatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG