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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttattcagacttcttcgaggcactggtgttagtatcactgctagtacggaacgttatgttctgaacagaattgttacac...

Basic information

species Arabidopsis thaliana
transcript AT1G64650.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g02380.1 (Oryza sativa), 5'ss of exon 6
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttattcagacttcttcgaggcactggtgttagtatcactgctagtacggaacgttatgttctgaacagaattgttacac
|||||||||||| ||||| ||||| ||||| || |||||||| ||||||||||| |||||||| ||||| ||| | ||||| ||  | ||  | |||||||| |||     ||||||   |  ||      |  ||| |  |     ||||  | || || | |  |   ||| || | |||||    ||||| || || 
GAAGATGAGATCTCAATATATTCCTGAGGAGGCAAGAAGCACAATCATGAATTTCTTCCGCATACCACTGAACTTGTTTGTTTGTGTGGTGCTTTACAATgtaagtgaaagtgttcttactgaatctca--tgattctaatc-----tgttgatttc-cttcaaaaat--aacatttttttctgt---gaatt-ttgcag

upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G051189_T01 (Zea mays), 5'ss of exon 1
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttatt----cagacttcttcgaggcactggtg----tta-gtatcactgctagtac----ggaacgttatg-ttctgaacagaattgttacac
|||||||||||| || |||||||| |||||||| |||||||| |||||||| || |||||||| ||||||||| | ||||| ||  | ||  | ||||  || ||    | |   ||||    | |        ||  || |  |  ||||      |||  ||  | |   || ||    | |||| | || || || |||   |  || || 
GAAGATGAGATCTCAGTACATTCCTGAGGAAGCGAGAAGCACAATCATGAACTTCTTCCGCATACCACTCAACTTATTTGTTTGTGTGGTGCTTTACATCgtaaggagccattccctctcccaactactatgttctctttagttgtgctggcaagaattatatagaaatatcagcacacaagtaacggtttgcttgtggacatggtctttgcag

upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G077669_T01 (Zea mays), 5'ss of exon 6
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttat--tcagacttcttcgaggcactggtgttagtatcactgctagtacg-gaacgttatgttctgaacagaattgttacac
||||||||| || || |||||||| |||||||| |||||||| ||||||||||| ||||||||||| |||||| | ||||| ||  | ||  | |||||||| ||   || |   ||| |   ||    ||| |     ||   |   |     |  | ||   | |   | | ||||| | || || |              
GAAGATGAGGTCTCAGTACATTCCTGAGGAAGCAAGAAGCACAATCATGAATTTCTTCCGCATCCCGCTCAACTTATTTGTTTGTGTGGTGCTTTACAATgtaaggagtcattccctcgtccaatggcaagaatatacagaaatatcagcacacgagtaacactttgcctgtggacgttgtcttttgcag-------------

upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G064563_T03 (Zea mays), 5'ss of exon 6
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttatt----cagacttcttcgaggcactggtgttagtatcac-----tgctagtac----ggaacgttatgt-tctgaacagaattgttacac
|||||||||||| || |||||||| |||||||| |||||||| |||||||| || |||||||| ||||||||| | ||||| ||  | ||  | ||||| |  ||    | |   ||||    | |        ||  || |  |  ||||    | |   ||     |   || ||    | |||| | ||  | || |||   |  || || 
GAAGATGAGATCTCAGTACATTCCTGAGGAAGCGAGAAGCACAATCATGAACTTCTTCCGCATACCACTCAACTTATTTGTTTGTGTGGTGCTTTACAACgcaaggagccattccctctcccaactactatgttctctttagttgtgctggcaagaattatacagaaatatcagcacacaagtaacgctttgcctgtggacatggtctttgcag

upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G067638_T01 (Zea mays), 5'ss of exon 6
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttattcagacttcttcgaggcactggtgttagtatcactgctagtacggaacgttatgt-tctgaacaga-attgttacac
|||||||||||| ||||| ||||| ||||| || |||||||| ||||||||||| ||||| || || |||||| | ||||| ||| | ||| |||||||||| ||    |    |  |||   |      | | | |       || | ||  |   | |     ||   |    ||| | | |  | | | || || ||| 
GAAGATGAGATCTCAATATATTCCCGAGGAGGCAAGAAGCACAATCATGAATTTCTTCCGTATACCGCTCAACCTGTTTGTTTGCGTGGTACTATACAATgtaagcag-caaaataacttgagaaaaccccatatccagattcttgtttttttttaaaatatatatatatatatatatatatatatatatatatagtaaca-

upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S8_271V6.1 (Physcomitrella patens), 5'ss of exon 6
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttat--tcagacttcttcgaggcactggtgttagtatcactgctagtacggaacgttatgttctgaacagaattgttacac-----------------------------------------------
||| ||||| || || || || || |||||  | |||||||| |||||||| ||||||||||||||  | ||| | || |||||  |||||||||||||||| |||  | || | |    |  ||  |||    ||||      |    || ||| |  | |      |   |  |    |    |     |||| ||| |                                                
GAAAATGAGGTCCCAGTATATCCCTGAGGAGTCGAGAAGCACAATCATGAACTTTTTCCGCATCCCTTTAAACGTTTTCGTCTGTGTTGTATTATACAATgtaagtcatgctttccctggtggatcttcacgactcttttctttatccttggtagaacaaatttggagattcatggaatcgccgagtttgaaattattaaagcagcaagctgtctgacttctcttttggtttgttgctaaacatttcag

upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ11977 (Selaginella moellendorffii), 5'ss of exon 6
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttattcagacttcttcgaggcactggtgttagtatcactgctagtacggaacgttatgttctgaacagaattgttacac
||||||| | || |||||||||||||||||| | || || || |||||||| || ||||| || || || |||||||| |||||| | ||  | ||||| || |||||      | |||     || | |||||| |   |   || | |     |    |||| |                                  
GAAGATGCGCTCTCAATACATTCCAGAGGAATCCAGGAGTACAATCATGAACTTCTTCCGGATTCCTCTTAACATCTTCGTCTGCGTGGTGCTTTACAACgtaagtttc-----tttctcaaggttta-acttctcccgtgttttgatatcttagttgtcgctactttcag-----------------------------

upper sequence: AT1G64650.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ21113 (Selaginella moellendorffii), 5'ss of exon 6
GAAGATGAGATCGCAATACATTCCAGAGGAAGCTAGAAGCACCATCATGAATTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttcctgttctctttttattcagacttcttcgaggcactggtgttagtatcactgctagtacggaacgttatgttctgaacagaattgttacac
||||||| | || |||||||||||||||||| | || || || |||||||| || ||||| || || || |||||||| |||||| | ||  | ||||| || |||||      | |||     || | |||||| |   |   || | |   | |    |||| |                                  
GAAGATGCGCTCTCAATACATTCCAGAGGAATCCAGGAGTACAATCATGAACTTCTTCCGGATTCCTCTTAACATCTTCGTCTGCGTGGTGCTTTACAACgtaagtttc-----tttctcaaggttta-acttctcccgtgttttgatatctttgttgtcgctactttcag-----------------------------

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|164159095|gb|ES125846.1|ES125846
EST:     CCTTGTATTATACAAT                         GTTGACGCGTTTCCAATGACCGTGATGTTTGGAATGTGCTCTGTATTCCTT
genomic: CCTTGTATTATACAATgtgagttttc ... tatgctaaagGTTGACGCGTTTCCAATGACCGTGATGTTTGGAATGTGCTCTGTATTCCTT
EST: gi|125292655|gb|EL306740.1|EL306740
EST:     TTTTTTCCGTCATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAAT                         GTTGACGCGTTTCCAATGACCGTGATGTTTGGAA
genomic: TTTTTTCCG-CATCCCACTCAACATCTTTGTCTGCCTTGTATTATACAATgtgagttttc ... tatgctaaagGTTGACGCGTTTCCAATGACCGTGATGTTTGGAA
EST: gi|124733003|gb|EH824405.1|EH824405
EST:     TTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTAATTATACAAT                         GTTGACGCGTTTCCAATGACC
genomic: TTTTTTCCGCATCCCACTCAACATCTTTGTCTGCCTTGTA-TTATACAATgtgagttttc ... tatgctaaagGTTGACGCGTTTCCAATGACC