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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcttttacaattgtatcaaagctgttatgtgtttgtttgcatcattaaaagtttggtggatgtctactaatgtttgcctggctctgttattgtagactgattatgtttgttgttttcttgtagCAATTTTGGACCAGTGCAAGATGTTAGGATTCCATACCAGCAGAAACGGATGTTTGGGTTTGTCACTTTTCTCCACTCTGAAACTGTGAGAATCATATTG

Basic information

species Arabidopsis thaliana
transcript AT3G21100.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G21100.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA01G43700.1 (Glycine max), 3'ss of exon 2
gtaatcttttacaattgtatcaaagctgttatgtgtttgtttgcatcattaaaagtttggtggatgtctactaatgtttgcctggctctgttattgtagactgattatgt-ttgttgttttcttgtagCAATTTTGGACCAGTGCAAGATGTTAGGATTCCATACCAGCAGAAACGGATGTTTGGGTTTGTCACTTTTCTCCACTCTGAAACTGTGAGAATCATATTG
                        | | |  | ||||  | |      || | |  ||| || |    ||| | ||     |    |  |  ||| ||  |||| ||  |  | |||||   ||| ||||| |||||||| || |||||||| || |||||||| ||||| || || |||||||||||||| || ||| || || | || || |||||| ||||||| 
------------------------gatatagt-tgttcttatagcgtgtttacatattgatgtacacatac-attggaattcaaattaagggatttta--ctgaatagctacttttgttcctttgaagCAAATTTGGACCTGTACAAGATGTGAGAATTCCATATCAGCAAAAGCGAATGTTTGGGTTTGTTACCTTTGTCTACCCAGAGACAGTGAGACTCATATTA

upper sequence: AT3G21100.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv06s0061g00150.t01 (Vitis vinifera), 3'ss of exon 2
gtaatcttttacaattgtatcaaagctgttatgtgtttgtttgcatcattaaaagtttggtggatgtctactaatgtttgcctggctctgttattgtagactgattatgtttgttgttttcttgtagCAATTTTGGACCAGTGCAAGATGTTAGGATTCCATACCAGCAGAAACGGATGTTTGGGTTTGTCACTTTTCTCCACTCTGAAACTGTGAGAATCATATTG
                       |  || || ||||| ||| | |   |    | ||||| |   || |  | |  |||   |  |   |||                | |||| ||  | ||| || | |||||| ||||| |||||||| ||||||||||||||||||||  ||||||| || || ||||||||  || || | || |||||||   |||| || 
---------------------gtaattgctacgtgttggttggaaatttcttcaatttggggttcgtgttgtgaaatttagttaacctagttg---------------gcttgt-gtgcttttgaagTATTTTTGGGCCAGTTCAAGATGTGAGGATTCCATACCAGCAGAAGAGGATGTTCGGATTCGTCACTTTCGTCTACCCCGAGACTGTGAAGCTCATTTTA

upper sequence: AT3G21100.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S31_251V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaatcttttacaattgtatcaaagctgttatgtgtttgtttgcatcattaaaagtttggtggatgtctactaatgtttgcctggctctgttattgtagactgattatgtttgttgttttcttgtagCAATTTTGGACCAGTGCAAGATGTTAGGATTCCATACCAGCAGAAACGGATGTTTGGGTTTGTCACTTTTCTCCACTCTGAAACTGTGAGAATCATATTG
           |||  ||  ||  ||  |  |||  || ||||||| ||| |||   |  ||||  ||  || |||          | | | |||              | ||  |  |   || ||   ||  || ||||| ||||||||| |||| || || |||||||| ||||||||||| ||||| |||||| |  | || |||||||| | |   || |||
---------gtcaacggtgaca--gccttactgtactt-tttgcat-attgaaatact--tggagatcctcttatgaccaatcaattttctcatt--------------tgtgcgggatgaatgcagGGCTTACGGTCCAGTCCAAGATGTTCGGATCCCCTATCAGCAGAAGCGGATGTTTGGTTTTGTGACTTTTGTATATTCAGAAACTGTTAAAGCAATTTTG

Mapped 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|19876911|gb|AU237742.1|AU237742
EST:     TTTCCAGCTGACAGCTCCTTCACAGATGAAGATGTCTCCAATTATTTTGG                         CAATTTTGGACCAGTGCAAGATGTTAGGATTCCATACCAGCAGAAACGGAT
genomic: TTTCCAGCTGACAGCTCCTTCACAGATGAAGATGTCTCCAATTATTTTGGgtaatctttt ... tttcttgtagCAATTTTGGACCAGTGCAAGATGTTAGGATTCCATACCAGCAGAAACGGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtttgcctggctctgttattgtagactgattatgtttgttgttttcttgtagCAATTTTGGACCAGTGCAAGATGTTAGGATTCCATACCAGCAGAAACGGATGTTTGGGTTTGTCACTTTTCTCCACTCTGAAACTGTGAGAATCATATTG
                                     tttgttgttttctt  CT-rich tract
                               attatgttt  TA-rich tract