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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgc...

Basic information

species Arabidopsis thaliana
transcript AT3G52560.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G071010_T01 (Zea mays), 5'ss of exon 2
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttg-agaagcatagattaatattatttgcatctcattgc-
   ||| || ||||| |||||||| ||||||||||||||||||||||  ||||||||||| ||||| || |||||||| |||||||| || |||||||| ||    | |   | |  |    ||  | | |||  || | | ||| || ||  ||||   | |    | | ||      | || || || ||   |   | | | 
AGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacacaatctcatc---ctctttatatttcccgt-gcctttattta-attaaggttagacacgcacaactgccaactactagtactttgctgcaactacc

upper sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G027378_T01 (Zea mays), 5'ss of exon 2
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttg-agaagcatagattaatattatttgcatctcattgc-
   ||| || ||||| ||||| || ||||||||||||||||||||||  ||||||||||| ||||| || |||||||| |||||||| || |||||||| ||    | |   | |     |||  ||     | ||||  | ||| || ||  ||||   | |    | | ||      | || || || |    |   |||   
AGAGAAGGGCATTGGTGATGGGACAGTGAGCTATGGAATGGATGATGCTGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacacaatctc----atcctctttatctttcctgtgcctttattta-attaaggttaggcacgcacaactgccaactactagtactctgctgcaattata

upper sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G35790.1 (Glycine max), 5'ss of exon 2
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgtta--tatctttttctttatctgctaacattctccttcgtcttcatatatgttaac--aattgt-tttgagaagcatagattaatattatttgcatctcattgc
    ||||| || || |||||||| || |||||||||||||||||||| || ||||| || ||||| ||||||||||| ||||| || || ||  | || |||  ||  ||||| || ||   |    |    || ||  ||   |   |  ||| |||   |  ||| ||| |   | |      ||| ||   || |||       
AGAAAAAGGAATCGGAGATGGAACAGTTAGCTATGGAATGGATGATGGTGACGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGCCCCTATAATgtaaatatttatctattactgccttgattttttttttctatcaaatatgtgcatgctaaatgagctgtattttatttgaaccagcgaatttt-catgtatc-------

upper sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G38450.1 (Glycine max), 5'ss of exon 2
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgc
    ||||| || || ||||| || || || ||||||||||||||||| |||||||| || ||||| ||||||||||| ||||| || |||||  | || |||  ||| | | |  |  |  ||       || | ||||   |   |  ||||||| |   | | |        |  | || |   |||| ||| |      
AGAAAAAGGAATAGGAGATGGCACAGTTAGTTATGGAATGGATGATGGTGATGACATTTACATGCGCTCTTGGACTGGAACCATTATTGGTCCCTATAATgtaaatatttatctaacactgccttgatttttttttcttcaaatatgtgcatgttaa-atgagctgtattttatttgtactagtga-attttcatgtagcaa-

upper sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G21780.1 (Glycine max), 5'ss of exon 1
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttctttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgc-
    ||||| ||| | ||||| ||  | ||||||| |||||||||||| |||||||| || ||||| ||| ||||||||||||| || || || || || |||   |||| | | | || |     ||  ||||  | |  ||    | | |   ||  || ||| | ||  ||||  |  |   |       |     ||   
TGAAAAAGGAATTAGAGATGGCACAATTAGCTATGTAATGGATGATGGTGATGACATTTACATGCGCTCTAGGACTGGCACCATTATTGGCCCCCAAAATgtaa--atatttctctgttcactctgtag-attcatccttatcgatgtgtgt-ccaatgatagttatcagttgcatgtaagaggctgcccccaaaaatgttaaa

upper sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0080g01080.t01 (Vitis vinifera), 5'ss of exon 2
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttc--tttatctgctaacattctccttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgc
   ||| |||||||| ||||| |||||||| |||||||||||||||||||||||||| || ||||| |||||||| || ||||| || ||||| ||||| |||   |    |    |  |||   ||||   |   | |||  || |    ||||||  |||  |  |  |    | |  | |    |   ||  |  |      
GGAGAAGGGTATTGGAGATGGTACTGTGAGTTATGGAATGGATGATGGAGATGACATATACATGCGGTCTTGGACAGGAACCATAATTGGTCCACACAATgtaagcagccttaaaacatttttcttgctgtaacatttcttattcattcattatgttc-caaaaggatcaatcctcttccagtggggtgccttaaactttt----

upper sequence: AT3G52560.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S490_20V6.1 (Physcomitrella patens), 5'ss of exon 3
---GAAAGGTATTGGGGATGGAACTGTGAGCTATGGAATGGATGATGGAGATGACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctttttctttatctgctaacattctc-cttcgtcttcatatatgttaacaattgttttgagaagcatagattaatattatttgcatctcattgc----
   |||||||||||| ||||| || || |||||||| ||||| ||||| |||||| | |  ||||| |||||||| ||||| || || || ||         ||  |  ||  || | |     ||||| |||  |  ||||  |  ||    |    | ||   ||| ||   ||   | ||  |    |     || ||       
AGAGAAAGGTATTGGCGATGGCACCGTCAGCTATGGCATGGACGATGGTGATGACGTATTCATGCGCTCTTGGACCGGCACTATTATTGGACCA--------AGCCACgtcagttccgtccagagctaaaatttacatttcgcgtgaattagcgactcccatcccttttaggcacaattagtagaaaatatcaagactaataagttca

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|86018900|gb|DR314646.1|DR314646
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018875|gb|DR314621.1|DR314621
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018902|gb|DR314648.1|DR314648
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018872|gb|DR314618.1|DR314618
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018874|gb|DR314620.1|DR314620
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC---                         ACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018885|gb|DR314631.1|DR314631
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTT-TGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018891|gb|DR314637.1|DR314637
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTA                         ACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018896|gb|DR314642.1|DR314642
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTA                         ACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018898|gb|DR314644.1|DR314644
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCYCACAAC--A                         -CTGTYCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|164043829|gb|ES081846.1|ES081846
EST:     ACTGGCACCATCATCGGTCCTCACAACGTA                         GCTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018881|gb|DR314627.1|DR314627
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC---                         ACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018878|gb|DR314624.1|DR314624
EST:     ACATCTATATGCGTTCTTGGACTGGCACTATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018884|gb|DR314630.1|DR314630
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTA                         ACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018901|gb|DR314647.1|DR314647
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018887|gb|DR314633.1|DR314633
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018871|gb|DR314617.1|DR314617
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018880|gb|DR314626.1|DR314626
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTA                         ACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAG
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAG
EST: gi|86018883|gb|DR314629.1|DR314629
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018899|gb|DR314645.1|DR314645
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018895|gb|DR314641.1|DR314641
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018882|gb|DR314628.1|DR314628
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTA                         ACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT
EST: gi|86018873|gb|DR314619.1|DR314619
EST:     ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAAC--A                         -CTGTTCATGAAGGTAGAATCTATAAGTTGAAGCTCTTTTGTGACAAAGAT
genomic: ACATCTATATGCGTTCTTGGACTGGCACCATCATCGGTCCTCACAACGTAgttatatctt ... tatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGAT