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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTTCCACAAGCGAATGCCACCTGAAGCAGTAGACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaaatcctgctggacaccacaaaactatataatctccttggctgatttggaattttctaactcaaattctacaaaacactttttttccatttgttaag

Basic information

species Arabidopsis thaliana
transcript AT4G00720.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G00720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G109624_T01 (Zea mays), 5'ss of exon 11
ATTTTCCACAAGCGAATGCCACCTGAAGCAGTAGACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaaatcct-gctggacaccacaaaactatataatctccttggctgatttggaattttctaactcaaattctacaaaacacttt--ttttccatttgttaag
 ||||    ||||| |||||||||||||| || || ||||| ||||| || |||||||||||||||||||| || |||||||| ||||||  ||||    | | |  ||     |||||   ||||        |  | | ||  | ||    |  |    ||| || | |||   ||| || |  ||||| 
CTTTTTGGTAAGCGCATGCCACCTGAAGCTGTTGATCTCGTGTCAAGGCTACTTCAGTACTCACCAAACCTGCGCTGCACTGCTgtaagaacaaatttgagattgtaactgatgaactagtgaatcca---aattagtatagacatgtcgctattga----tactaagctcttatgtttcccttcagttaa-

upper sequence: AT4G00720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G131853_T01 (Zea mays), 5'ss of exon 11
ATTTTCCACAAGCGAATGCCACCTGAAGCAGTAGACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaaga-ctaaatcctgctggacaccacaaaactatataatct---ccttggctgatttggaattttctaactcaaattctacaaaacacttttt-ttccatttgttaag----------------------------------------
 ||||    ||||| |||||||| || || || || ||||| ||||| || || ||||||||||| ||||| || |||||||| |||||| |||| ||  | | |  |||    || ||   || |         |  ||  ||    | |  |    ||  || | |     | ||   ||  |   ||||                                          
CTTTTTGGTAAGCGCATGCCACCCGAGGCTGTCGATCTCGTGTCAAGGCTGCTCCAGTACTCACCGAACCTGCGCTGCACTGCTgtaagaactaattcgagattgcaaccgaccaattactgaacccaaattcgtgtagacgtgttgctattgacactaagctccatatttttccttgggttaaaccagttatacggtagtttctgatcgaagatattttaattatattcccag

upper sequence: AT4G00720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA03G01850.1 (Glycine max), 5'ss of exon 11
ATTTTCCACAAGCGAATGCCACCTGAAGCAGTAGACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaaatcctgctggacaccacaaaac-tatataatctccttggctgatttggaattttctaactcaaattctacaaaacactttttttccatttgttaag
 |||| |||||| |||||||||||||||| || || || || ||||| || ||||| || |||||||| || ||||||||||| |||||  |  ||  |     |    ||  |   ||| ||   | | |     || |   ||   | ||||  | || |   |  ||| |  || |||      || 
GTTTTTCACAAGAGAATGCCACCTGAAGCTGTGGATCTTGTATCAAGGCTGCTTCAATATTCACCAAATCTACGTTGCACTGCTgtaag--ttgatttttgaaaatgttacctattatatctagattacataatacatatttgat---caaactacagtttttatatgcacatacttaccaaagaagaa-

upper sequence: AT4G00720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S306_43V6.2 (Physcomitrella patens), 5'ss of exon 10
ATTTTCCACAAGCGAATGCCACCTGAAGCAGTAGACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaaatcctgctggacaccacaaaactatataatctccttggctgatttggaattttctaactcaaa---ttctacaaaacactttttttccatttgttaag
 |||||||||| || ||||||||||||||||| ||| | || ||||| |||||||||||||| ||||| || || ||||  || || ||      || |  |                  |    |  |  ||||  | ||  |    | | ||      |||| | |    |        ||||       
GTTTTCCACAAACGCATGCCACCTGAAGCAGTTGACTTGGTGTCAAGGCTCCTTCAGTACTCTCCAAATCTGCGGTGCAACGCTgtgag-tagcgtcatattctgtgttgttggtacgggtgtgatgttgagctgtgtgggtctgcgttgagtcgtggcgttctgcgaggtgccaacgaggcatt-------

upper sequence: AT4G00720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 5'ss of exon 9
ATTTTCCACAAGCGAATGCCACCTGAAGCAGTAGACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaag-----actaaatcctgctg----gacaccacaaaactatataatctccttggctgatttggaattttctaactcaaattctacaaaacactttttttccatttgttaag
 ||||||||||||| ||||| || ||||||||||| || || ||||| || ||||||||||| || || || || |||| ||| || ||     ||    |  | |||    ||       |      | |   || |||| |    || |  |||||  ||   |||      ||||   | ||             
GTTTTCCACAAGCGCATGCCTCCAGAAGCAGTAGATCTGGTTTCAAGGCTACTTCAGTACTCTCCGAATCTGCGGTGCAATGCTgtgagtgatgacggggtttttctgttgtgaagtgttgatcgcgcagaccatcgttggttacgatgaatctttctctct---attggtgggaacaggatgttga-----------

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|124819416|gb|EH904282.1|EH904282
EST:     ACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCA                         TTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTA
genomic: ACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTA
EST: gi|125316190|gb|EL330275.1|EL330275
EST:     ACCTCGTCTCAAGACTCCTTCAGTATTCACCAAACCTTCGTTGCACTGCA                         TTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGG
genomic: ACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGG
EST: gi|125003466|gb|EL075735.1|EL075735
EST:     ACCTCGTCTCAAGA-TCCTTCAGTACTCACCAAACCTTCGTTGCACTGCA                         TTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAA
genomic: ACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAA
EST: gi|124718430|gb|EH809832.1|EH809832
EST:     CCAAACCTTCGTTGCACTGCA                         TTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAAATGTT
genomic: CCAAACCTTCGTTGCACTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAAATGTT
EST: gi|124986600|gb|EL059109.1|EL059109
EST:     ACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCA                         TTGGAAGCTTGTGACACACCCCTTCTTTGATGACTTACGGGATCCAA
genomic: ACCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCACTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTG-CACACCCCTTCTTTGATGACTTACGGGATCCAA
EST: gi|164179714|gb|ES211638.1|ES211638
EST:     CCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCAACTGCA                         TTGGAAGCTTGTGCACACCCCTTCT
genomic: CCTCGTCTCAAGACTCCTTCAGTACTCACCAAACCTTCGTTGCA-CTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTGCACACCCCTTCT
EST: gi|125076962|gb|EL139921.1|EL139921
EST:     GTTGCACTGCA                         TTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAAATGTT
genomic: GTTGCACTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAAATGTT
EST: gi|125297455|gb|EL311540.1|EL311540
EST:     GTACTCACCAAACCTTCGTTGCACTGCA                         TTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAAATGTT
genomic: GTACTCACCAAACCTTCGTTGCACTGCAgtaagactaa ... atttgttaagTTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAAATGTT