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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagaccagccttttcactttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAAC

Basic information

species Arabidopsis thaliana
transcript AT1G51610.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g23180.1 (Oryza sativa), 3'ss of exon 4
--gtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagacca-gcctt---ttcactttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAAC
   | | |    ||   |||    |     ||| ||         | |   | |  |    |||     | | |   ||| | |||   ||| ||||   ||||||||| || ||||||||||||||||||||||| ||||||||||| ||||| || |||||  | || || ||||||||||| ||  ||||||| || |||
cactaaatgctactcacaatagaatcagtggtaaggctatttgtgata---tgccataaactgacatgctgcctgccccatgtcttaatttctctttctgcagCTATGGTTATTCAAAAGAAAGATTTGTATGGTCCTTGATATCTGCAGTTGGAATATTTTGTTTGGGTTCAGGTGCTACCATTGTGCATGGAGTTCAAAAC

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G065839_T01 (Zea mays), 3'ss of exon 4
-----gtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagtacttagaccagccttttcactttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAAC
      |   |    | |  | |  ||       |||  || ||| | |  | |  ||  ||| |  |   | ||  |    |  | |  |  |||   ||||||||| || || || |||||||||||||||||| | |||||||| ||||| || |||||| | || || |||||||| || ||  ||||||| || || 
ataatatccattagacaaccagtgatgggattaatattatacaactgcaatgatgccttatgtcttgaattg-acagatgttaatcctggcttttt-tgcagCTATGGTTATTCTAAGGAAAGATTTGTATGGTCTCTCATATCTGCAGTTGGAATATTTTGCTTGGGTTCCGGTGCTACAATTGTGCATGGAGTTCAAAAT

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G02280.2 (Glycine max), 3'ss of exon 3
-gtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttct--cttgtttgaagaagtacttagacca-gccttttcactttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAAC
    | |   |    | | ||   ||| ||  |  |      | |   ||||     ||   ||  |   ||    | | | |  | |||  |||   |||||||||||| || || ||||||||||| ||||| ||||||||||||||||| |||||||| ||||| |||||||| ||| | ||||||||||||||||||
ttctatttcatgggatgaactgagatattgcttt-tgtgtttgtatgactttggagtttaactggtgtgttaaaatggcaatgtgtcttctttttctacagCTATGGCTATTCCAAGGAAAGATTTGTTTGGTCCTTGATATCTGCTGTTGGGATCTTTTGTCTTGGTTCTGGTGCCACCGTTGTTAATGGAGTACAGAAC

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G23740.1 (Glycine max), 3'ss of exon 4
-gtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttct--cttgtttgaagaagtacttagaccagcc-ttttcactttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAAC
    | |   |    | | ||  |||| ||  |  |      |     ||||     ||  | |      ||    | | | |  | |||  |||   ||| |||||||| || || ||||||||||| ||||| ||||||||||||||||| || ||||| ||||| |||||||| ||| | ||||||||||||||||||
ttctatttcatgggatgaactgatatattgcttt-tgtctttgtgtgactttggaatttaatcggtatgttaaagtggcaatctgtcttctatttctgcagTTATGGCTATTCCAAGGAAAGATTTGTTTGGTCCTTGATATCTGCTGTTGGGATATTTTGTCTTGGTTCTGGTGCCACCGTTGTTAATGGAGTACAGAAC

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv09s0054g00220.t01 (Vitis vinifera), 3'ss of exon 4
-gtgagtctctctagtaatcttgtatactgtatggtagaacagaacagctttctcttgtttgaagaagta--cttagaccagccttttcactttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAAC
 |    |   |  || |   |  |||   |  |   |        |   | |   | |  |  |  | ||  || | |      ||||    ||  |||| |||||||| || || |||||||| || |||||| |||| ||||| ||||| || ||||| ||||| ||||||||||| || ||| |||||||||| || 
ggcacatgcatgaaggatattcatattgaggcttacaacttgtttcttttgttcatagactatatgaataatctgaaatttttatttttgtgttcttcagTTATGGCTATTCGAAGGAAAGATTCGTTTGGTCTCTGATTTCTGCCGTTGGTATATTTTGTCTTGGTTCTGGTGCTACAATTGTTCATGGAGTACAAAAT

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|116466669|gb|EG509261.1|EG509261
EST:     CTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCT                         CTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGG
genomic: CTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCCgtgagtctct ... ctttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacagctttctcttgtttgaagaagtacttagaccagccttttcactttgctcagCTATGGCTACTCAAAAGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAAC
                                     ccttttcactttgctc  CT-rich tract