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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgcaccttttttggtttcaattttgtttattagattttgattatgacataacccaaaaaagttttcgaataaattttggataattaacaatatttcattacttgacggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGGCTGCCGCTTCCTTTGGGACTGAAACCGCCGTCGGTTGACGGTGTTATGA

Basic information

species Arabidopsis thaliana
transcript AT5G44190.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G44190.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA12G13430.1 (Glycine max), 3'ss of exon 5
gtgagtgcaccttttttggtttcaattttgtttattagattttgattatgacataacccaaaaaagttttcgaataaattttggataattaacaatatttcattacttgacggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGGCTGCCGCTTCCTTTGGGACTGAAACCGCCGTCGGTTGACGGTGTTATGA
             | |    |     | || || ||   ||||   | ||| | |    || ||  |  |  | |||   ||   || ||   |   |||  ||| ||     || ||||| || ||| ||||||||||||||||||| || ||| |||||||||| ||||||||||| ||| | ||||| ||  | ||  |  ||||  |||| ||||
-------------tgtcaaatgatcatatggttgttg--ttttacgtgtga-agagtagaataacatcattaattaa---ttaattagtttttatattttatttattttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA

upper sequence: AT5G44190.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G44330.1 (Glycine max), 3'ss of exon 5
gtgagtgcaccttttttggtttcaattttgtttattagattttgattatgacataacccaaaaaagttttcgaataaattttggataattaacaatatttcattacttgacggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGGCTGCCGCTTCCTTTGGGACTGAAACCGCCGTCGGTTGACGGTGTTATGA
       ||  | ||||  |||   ||  || |   ||| |   |||||  |||||    ||  | ||     ||||||| ||  | ||| |   | || ||| | ||      | ||||| || ||| ||||||||||||||||||| || ||| |||||||||| |||||||| || ||| | ||||| ||  | ||  || ||||  |||| ||||
-------catgtgttttaatttgttttacgtgtga-agagtagaattattgcataatt--aattaattagtttataaattatg--ttattcatttt-ttgcatcattt------tacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCTCTACCTATTGGACTTAAGGCTCCAGCGCTTGATAGTGTGATGA

upper sequence: AT5G44190.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 5
gtgagtgcaccttttttggtttcaattttgtttattagattttgattatgacataacccaaaaaagttttcgaataaattttggataattaacaatatttcattacttgacggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGGCTGCCGCTTCCTTTGGGACTGAAACCGCCGTCGGTTGACGGTGTTATGA
      | |  ||   ||| |     |   | |   ||     | | |  |        || | || | |    |||   ||   |  ||  |  | |||   ||  |     |||||||| || |||| |||||||||||| ||||| || | | |||||||||| |||| ||| |||||| | || || ||||| || ||  |||| ||||| ||| 
------ggagattgcatggctctctctccatcttaaag-----ggtcagcatgcttgtgaatagagatat----taatccttttttttttttctgttttttggtatata----ttgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG

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|125072002|gb|EL136848.1|EL136848
EST:     ACAATTAGGACCCACTAATCCTCCCATCGACATTCATCCC                         TCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATAT
genomic: ACAATTAGGACCCACTAATCCTCCCATCGACATTCATCCCgtgagtgcac ... acggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATAT
EST: gi|124716196|gb|EH807598.1|EH807598
EST:     CCCACTAATCCTCCCATCGACATTCATCCC                         TCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGG
genomic: CCCACTAATCCTCCCATCGACATTCATCCCgtgagtgcac ... acggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGG
EST: gi|125003854|gb|EL076123.1|EL076123
EST:     TTCCCACAAGACAATTAGGACCCACTAATCCTCCCATCGACATTCATCCC                         TCGAATGAGAGCA
genomic: TTCCCACAAGACAATTAGGACCCACTAATCCTCCCATCGACATTCATCCCgtgagtgcac ... acggttgcagTCGAATGAGAGCA
EST: gi|124907393|gb|EH981473.1|EH981473
EST:     GACAATTAGGACCCACTAATCCTCCCATCGACATTCATCCC                         TCGAATGAGAGCATAGATGCAGCTATTGGGGA
genomic: GACAATTAGGACCCACTAATCCTCCCATCGACATTCATCCCgtgagtgcac ... acggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttcgaataaattttggataattaacaatatttcattacttgacggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGGCTGCCGCTTCCTTTGGGACTGAAACCGCCGTCGGTTGACGGTGTTATGA
        aataaattttggataa  TA-rich tract