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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA

Basic information

species Arabidopsis thaliana
transcript AT1G80480.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G180418_T03 (Zea mays), 3'ss of exon 8
---------------------------------------------------------------------------------------------gttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttca--ctttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA
                                                                                              |   |||| |    ||| || ||   ||| | | ||  |  |     |||   | ||     ||| | | |   | ||   |||| |||  | || || || ||||| ||||| ||||| || ||||| ||||| | | |||| ||||||||||| |||||||||||||||||| ||||||| || ||
gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatc-ttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA

upper sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 3
---------------------------gttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA
                            |   || | |    |  | | | ||   || |  |    |     |  |||   |    | | || |   | |||  ||||   ||| |||||||| || ||||| || ||||| ||||||||||| |||||| | ||||| |||||||||||| |||| |||||||||||||| |||||||| ||
gtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatggttgtgcttagtgtgaccgac--ttgttttgt---tgtttgtacttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA

upper sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G38450.1 (Glycine max), 3'ss of exon 3
gttgg-gaaagggggcattttcatttagtat---gcttagagaatctg---------------gggaatgagta--atgactatcttatgtttattttcacttttt---agGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA
||    |  || |   ||| |  |||| |||     || |   | ||                ||   ||  ||  ||||||  ||| |    || ||     |||   ||| |||||||| || ||||| || ||||| ||||||||||| |||||| | ||||| ||||| |||||| |||| |||||||||||||| ||||| || ||
gtaactggcagagtttattcttgtttaatataagatttggtagacctccttgttagttgttatggtcgtgcttagtatgactgacttgttcccatgtttgtactttgacagGTTTGGCAAATCCAGCACCAATAATCCAGACCTTTTATGCAGAGGAAAACATTTTTAATGAAGTCAAATTGGATGGTGTTGTTACTCTGGTTGACGCAAA

upper sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
---------------gttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttca-ctttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA
                |   || | |  ||||||  | |   ||    |   | || |      || ||  |   |   | |   || ||| || |||   |||||||||||| || ||||| || || || || |||||||| |||||  | ||||||||||||||||||||||| || ||||||||| | |||||||||||
gtatatacacttcctttacagatatgtagcatttcgactagctaaatgtgttggatttctc---tgggttttatattcatgaatcttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA

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|125320838|gb|EL334923.1|EL334923
EST:     AGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAG                         GATTGGCAAAACCCCGGCACC
genomic: AGTCAATACCAAGAAAGGAAAGTTCGATCATATAGTCATAGAGACTACAGgttgggaaag ... cactttttagGATTGGCAAA-CCC-GGCACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA
                                     tttattttcacttttt  CT-rich tract
                                ttatgtttattttcac  TA-rich tract