Sequence
atgc intronic sequence ATGC exonic sequenceACCGGATGTTCTTGACTCCGCGTTGCTGAGACCTGGTAGATTTGACCGGCAAGTCACAGTGGATAGGCCTGATGTAGCCGGAAGAGTTCAGATCCTTAAGgtttcttcttgctttcattttctgttagagtgaaacaatggagacagtgtggtgaataatgttgtgtggtttattgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G42270.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G42270.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA04G02100.1 (Glycine max), 5'ss of exon 1
ACCGGATGTTCTTGACTCCGCGTTGCTGAGACCTGGTAGATTTGACCGGCAAGTCACAGTGGATAGGCCTGATGTAGCCGGAAGAGTTCAGATCCTTAAGgtttctt-------cttgctttcattttctgttagagtgaaacaatggagacagtgtggtgaataatgttgtgtggtttattgcag--------------
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ACCGGATGTTCTTGATTCGGCGTTGTTGAGGCCTGGCCGGTTCGACAGGCAAGTTACTGTGGATAGACCTGATGTTGCCGGCAGAGTTAAAATTCTTCAGgtgacataacataacccttttcaaattgttatttaattactattagaatttcccttccataacatacctaacctaacctttattaagtagagaggagtgc
upper sequence: AT5G42270.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA06G02200.1 (Glycine max), 5'ss of exon 1
ACCGGATGTTCTTGACTCCGCGTTGCTGAGACCTGGTAGATTTGACCGGCAAGTCACAGTGGATAGGCCTGATGTAGCCGGAAGAGTTCAGATCCTTAAGgtttct-tcttgctttcattttctgttagagtgaaacaatggagacagt-gtggtgaataatgttgtgtggtttattgcag-------------------
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ACCGGATGTTCTTGATTCGGCGTTGTTGAGGCCTGGCCGGTTCGATAGGCAAGTTACTGTGGATAGACCTGATGTTGCCGGCAGAGTTAAAATCCTTCAGgtgagtctgtctcagccataacataacatcataacccttttgatattgttattgttctttaattactgttactagtattagaatttcacttccataacct
upper sequence: AT5G42270.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv18s0001g00190.t01 (Vitis vinifera), 5'ss of exon 1
ACCGGATGTTCTTGACTCCGCGTTGCTGAGACCTGGTAGATTTGACCGGCAAGTCACAGTGGATAGGCCTGATGTAGCCGGAAGAGTTCAGATCCTTAAGgtttcttcttgctttcattttctgttagagtgaaacaatggagacagtgtggtgaataatgttgtgtggtttattgcag----------------------
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ACCAGACGTTCTTGATTCTGCATTGCTAAGGCCTGGGAGGTTCGATCGACAGGTTACTGTGGATAGGCCTGATGTTGCTGGTAGAGTTAAGATCCTTCAGgttagtttattcacaaaccctgcttattgcttattcatttgctgct-tgtggttggtgtcgtcacacagattttagaatcaaaatgcgctgtatggaaattMapped 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|125239275|gb|EL253360.1|EL253360EST: GCCTGATGTAGCCGGAAGAGTTCAGATCCTTAAG GTGCATTCTAGAGGAAAAGCTATTGGGAAGGATGTTGATTACGAAAAAGTT
genomic: GCCTGATGTAGCCGGAAGAGTTCAGATCCTTAAGgtttcttctt ... tttattgcagGTGCATTCTAGAGGAAAAGCTATTGGGAAGGATGTTGATTACGAAAAAGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCGGATGTTCTTGACTCCGCGTTGCTGAGACCTGGTAGATTTGACCGGCAAGTCACAGTGGATAGGCCTGATGTAGCCGGAAGAGTTCAGATCCTTAAGgtttcttcttgctttcattttctgttagagtgaaacaatggagacagtgtggtgaataatgttgtgtggtttattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA