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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttatccacactgtccctatatgcacgatcgactgaaatctttttaacgcacaattttatccttttgggctcatttggctttgccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTACAGAGAGAACGTTTCTAATTCAGTCGTGATGATTCAACCTTCACTGATTT

Basic information

species Arabidopsis thaliana
transcript AT2G21630.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G21630.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G063775_T02 (Zea mays), 3'ss of exon 1
gtacttatccacactgtccctatatgcacgatcgactgaaatctttttaacgcacaattttatccttttgggc-tcatttggctttgccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTACAGAGAGAACGTTTCTAATTCAGTCGTGATGATTCAACCTTCACTGATTT
          | ||||| | | |       ||  |   |  | ||    | | | || | ||    | |||     | ||   | |  || ||| |||| ||||| ||||| || || || || || |||||| | ||||| ||| |||||||||| ||  | ||| |||| |||||||||||||||||||| || |
--------gtagactgttctttttc-----attaatcaatgttttgaagatg-ataagtatacatctctggatactaattatttatttctgttgcagGTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGACAGAGAGAATGTAACCAATACAGTTGTGATGATTCAACCTTCACTTATAT

upper sequence: AT2G21630.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA16G09260.1 (Glycine max), 3'ss of exon 3
gtacttatc-cacactgtcc---ctatatgcacgatcgactgaaatctttttaacgcacaattttatccttt--tgggctcatttggctttgccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTACAGAGAGAACGTTTCTAATTCAGTCGTGATGATTCAACCTTCACTGATTT
|||  | |     | ||||    ||||||        ||       |  |   |      | || |   |||  |    |   ||   | |   | |   |||||||||||||||||||||| ||||| || || ||| |||||||| || || | || || ||| | ||||| || || ||| |||| |||||  ||||||
gtatgtgttgtgtattgtcggagctatataagtttgtgatatttgccagtgatatttggtacttcaatgtttacttattttccttaattatatttatcacagGTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTGAACCGTGAAAATGTTACAAATTCTGTTGTCATGGTTCAGCCTTCGTTGATTT

upper sequence: AT2G21630.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 9
gtacttatcc-acactgtccctatatgcacgatcgactgaaatctttttaacgcacaattttatccttttgggctcatttggctt---------tgccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTACAGAGAGAACGTTTCTAATTCAGTCGTGATGATTCAACCTTCACTGATTT
|||  | |   | | |||   |  ||  |  |     ||| || || | |  | |  ||||| | ||||   | | | ||   ||         |   | |   |||||||||||||||||||||| ||||| || || ||| |||||||| |  || | || || ||| | ||||| || || ||| |||| |||||  ||||||
gtatgtgttttatattgt---tggatttataagtttgtgatat-ttgtcacagtaatattttgtactttaatgtttacttattttccttaattatatttatcacagGTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTAAACCGTGAAAATGTTGCGAATTCTGTTGTCATGGTTCAGCCTTCGTTGATTT

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|125274146|gb|EL288231.1|EL288231
EST:     TTTTCCCGCAGTTTGTGTTTCACTTGCGCCGATCTCAGTTTGTCCAG                         GTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTA
genomic: TTTTCCCGCAGTTTGTGTTTCACTTGCGCCGATCTCAGTTTGTCCAGgtacttatcc ... ccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttttaacgcacaattttatccttttgggctcatttggctttgccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTACAGAGAGAACGTTTCTAATTCAGTCGTGATGATTCAACCTTCACTGATTT
   ttttaac  putative branch site (score: 2)
                                        ctttgcctttt  putative PPT
              aattttatcctttt  TA-rich tract