Sequence
atgc intronic sequence ATGC exonic sequenceACATTGTGATGATGGTTTGATAGAGATTTTCGGTTTTAAGCAAGGATGGCACGCGTCATTTGTCATGGCTGAGCTCATCTCTGCCAAGCACATAGCTCAGgtaacttcaaaagacactggtcaatgtataatctttttagccatgtgtttgactgtttcattttggtgatcatttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G18730.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G18730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G073380_T01 (Zea mays), 5'ss of exon 5
ACATTGTGATGATGGTTTGATAGAGATTTTCGGTTTTAAGCAAGGATGGCACGCGTCATTTGTCATGGCTGAGCTCATCTCTGCCAAGCACATAGCTCAGgtaactt-------caaaagacactggtcaatgtataatct-----ttttagccatgtgtttgactgtttcattttggtg-atcatttcag-----------------
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CCAATCAGATGATGGTCTTCTTGAGATATTTGGACTGAAGCAAGGGTGGCATGCATCTCTCGTGATGGTTGAACTTATATCTGCCAAGCACATAGCTCAGgtaacttgctcccccaaacaaaaacaaaaaaaaagtattctataaactatagaaagaatatttattacttcattcagaagcaccgcataatttggtgctaatgttcag
upper sequence: AT2G18730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA13G01360.2 (Glycine max), 5'ss of exon 11
ACATTGTGATGATGGTTTGATAGAGATTTTCGGTTTTAAGCAAGGATGGCACGCGTCATTTGTCATGGCTGAGCTCATCTCTGCCAAGCACATAGCTCAGgtaac----ttca--aaagacactggtcaatgtataat---ctttttagc--catgtgtttgactgtttcatttt---ggtgatcatttcag--------
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TGATGTTGCCGATGGGCTCTTGGAAGTATTTGGTTTAAAACAAGGATGGCACGCATCGTTTGTCATGGTGGAACTGATCTCTGCTAAGCACTTAGCTCAGgtaccacagtttattgtttatgttcttgagtgaattgcttgcttttcaaatgcaaaaatttgaactttagattccctgactgcttatgtctgagaggttg
upper sequence: AT2G18730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA17G07480.1 (Glycine max), 5'ss of exon 11
ACATTGTGATGATGGTTTGATAGAGATTTTCGGTTTTAAGCAAGGATGGCACGCGTCATTTGTCATGGCTGAGCTCATCTCTGCCAAGCACATAGCTCAGgta---------acttcaaaagacactggtcaa--tgtataatctttttagccatgtgtttgactgtttcattttggtgatcatttcag-----------
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TGATGTTGCCGATGGGCTCTTGGAAGTATTTGGTTTAAAACAAGGATGGCATGCATCATTTGTTATGGTTGAACTGATCTCTGCTAAGCACTTAGTTCAGgtaccacagtttattgtttatgttcttgagtgaattgcttacttttcaaattaaaaaattttgaactttagattccctgattgcttttgctgagaggttg
upper sequence: AT2G18730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA18G22370.1 (Glycine max), 5'ss of exon 4
ACATTGTGATGATGGTTTGATAGAGATTTTCGGTTTTAAGCAAGGATGGCACGCGTCATTTGTCATGGCTGAGCTCATCTCTGCCAAGCACATAGCTCAGgta--acttcaaaagacactggtcaatgtataatctttttagccatgtgtttgactgtttcattttggtg---atcatttcag-----------------
||| ||||||||| | |||| || || ||| | || ||||||||||| || |||||||||||| ||| || || ||||| ||||| |||||||||||| | | || | | || | | ||| | ||| ||| ||| ||| | || | |||
ACAAGTTGATGATGGACTTTTAGAAATATTTGGTCTAAAACAAGGATGGCATGCATCATTTGTCATGAGTGAACTTATTTCTGCAAAGCATATAGCTCAGgtaccatattaatttgacgtattttattctttgtgatttgggttgtgttttttacttcaaaattgtaaaatatatgaactcaatttttttaatgcttagt
upper sequence: AT2G18730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv11s0052g01840.t01 (Vitis vinifera), 5'ss of exon 11
ACATTGTGATGATGGTTTGATAGAGATTTTCGGTTTTAAGCAAGGATGGCACGCGTCATTTGTCATGGCTGAGCTCATCTCTGCCAAGCACATAGCTCAGgtaacttcaaaagacactggtcaatgtataatcttttta-gccatgtgtttgact---gtttcattttggtgatc---atttcag----------------
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TCATGTCGATGATGGGCTTCTAGAAATTTTTGGCCTAAAGCAGGGATGGCATGCTTCATTTGTAATGGTGGAACTCATCTCTGCCAAGCACATTGCACAGgta-ttgcagttattttgaaattttttattattcatgtatgacaagtgtttggtcttagcttcacttaaaaggttcaagtttcagcattgtgcatttttatMapped 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|164102921|gb|ES067894.1|ES067894EST: AAGCACATAGCTCAG GCTGCTGCGGTAAGATTTGAGCTAAGAGGAGGTGACTGGAGAGACGCATTC
genomic: AAGCACATAGCTCAGgtaacttcaa ... atcatttcagGCTGCTGCGGTAAGATTTGAGCTAAGAGGAGGTGACTGGAGAGACGCATTC
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 |
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ACATTGTGATGATGGTTTGATAGAGATTTTCGGTTTTAAGCAAGGATGGCACGCGTCATTTGTCATGGCTGAGCTCATCTCTGCCAAGCACATAGCTCAGgtaacttcaaaagacactggtcaatgtataatctttttagccatgtgtttgactgtttcattttggtgatcatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA