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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatcttatttttgcaatctgatattcttacttgtgtgttttgcctcaaaaactggaaaaaaaaaagaacgtttccatacttctagttttgttcatggaagagcaatgcagagttcaatcatgtcttatggatatattgtttcattgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGTACTGTGTGGAAAGTGTTGTTTGGAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G58030.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G58030.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G439457_T01 (Zea mays), 3'ss of exon 4
gtacatcttatttttgcaatctgatattcttacttgtgtgttttgcctcaaaaactggaaaaaaaaaagaacgtttccatacttctagttttgttcatggaagagcaatgcagagttcaatcatgtcttatggatatattgtttcattgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGTACTGTGTGGAAAGTGTTGTTTGGAAAG
                                                     ||   | |   |    |   | |  ||  ||    || | ||| |  |       |   |||  || ||||||||    |||| |||   |  ||  |||||||||| ||| ||||||||||  | ||||| ||| | || ||| | ||||||||||| |||||||||||||||||||||
-----------------------------------------------------acataatatccatgttataatatatattatttgctttcttttcctataccttttgttttgagg-cagtcatgtctggaagata-attagattgttacttcagGGAAATAGACGAGAGACACGACTTCTGGGCATTTTATCATTCATCCACAGTACTGTTTGGAAAGTGTTGTTTGGAAAG

upper sequence: AT5G58030.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G03480.1 (Glycine max), 3'ss of exon 4
gtacatcttatttttgcaatctgatattcttacttgtgtgttttgcctcaaaaactggaaaaaaaaaagaacgtttccatacttctagttttgttcatggaagagcaatgcagagttcaatcatgtcttatggatatattgtttcattgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGTACTGTGTGGAAAGTGTTGTTTGGAAAG-
                                 |    |||  ||  |  |  |  |  |  |     |||  | |   || || |   | || | | | | ||   ||  ||||||                        |||     || |||||||||||||||||||||||| |  ||   ||||| ||||| || |||||||| ||||||||||| || ||||||||| 
--------------------------------ttgacatgtactgatttgagtatggtcacgagggtggaagatctatgtatttttgcatgtggtta-gcatgattgatttagagtt-----------------------attttgaaattacaggGAAACAGAAGAGAGACACGGCTGTTGAATATTCTTTCTTTTGTACACAGTACAGTGTGGAAAGTATTATTTGGAAAGG

upper sequence: AT5G58030.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G34840.1 (Glycine max), 3'ss of exon 4
gtacatcttatttttgcaatctgatattcttacttgtgtgttttgcctcaaaaactggaaaaaaaaaagaacgtttccatacttctagttttgttcatggaagagcaatgcagagttcaatcatgtcttatggatatattgtttcattgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGTACTGTGTGGAAAGTGTTGTTTGGAAAG
                               | |    |||  ||  |  |     |  |  |     |||  | |   || || |   | || | | | | ||   ||  ||||||                        |||     || |||||||||||||| ||||||||| |  |||| ||||| ||||| || |||||||| || |||||||| || |||||||||
-------------------------------attgacatgtactgatttgagtttggtcatgagggtggaatatctatgtatttttgcatgtggtta-gcatgattgatttagagtt-----------------------attttggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGTACAGTATGGAAAGTATTATTTGGAAAG

upper sequence: AT5G58030.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv11s0037g00110.t01 (Vitis vinifera), 3'ss of exon 3
gtacatcttatttttgcaatctgatattcttacttgtgtgttttgcctcaaaaactggaaaaaaaaaagaacgtttccatacttctagttttgttcatggaagagcaatgcagagttcaatcatgtcttatggatatattgtttcattgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGTACTGTGTGGAAAGTGTTGTTTGGAAAG
                                |  ||| |||||| || | |     |||   |    ||||      | | |   | | |  | |||| | |||||        | |||| | || |||         | ||    ||   |||||||||||||| ||||||||  || |||| ||||| ||||| || |||||||| || ||||| ||||| ||||| |||
-----------------------------actccagtgggttttggcttatat----gaattcagtgtgaac-----tacattgacaatctcttgcatgtatgagca--------tgcaataa-gtgttac--------ttttctgatgccacagGGAAACAGAAGGGAGACACGACTATTGGGTATTCTTTCTTTTGTACACAGTACAGTATGGAAGGTGTTATTTGGGAAG

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|86086381|gb|DR382140.1|DR382140
EST:     GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAG                         GGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
genomic: GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAGgtacatctta ... attgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
EST: gi|152033803|gb|BP816492.2|BP816492
EST:     GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAG                         GGAAACAGAAGAGAGACACGGCTTACTGGGAATTCTGTCTTTCGTTCACAG
genomic: GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAGgtacatctta ... attgtttcagGGAAACAGAAGAGAGACACGG-TTACTGGGAATTCTGTCTTTCGTTCACAG
EST: gi|125065814|gb|EL132908.1|EL132908
EST:     TTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAG                         GGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
genomic: TTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAGgtacatctta ... attgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
EST: gi|19874921|gb|AU235752.1|AU235752
EST:     GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAG                         GGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
genomic: GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAGgtacatctta ... attgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
EST: gi|125125224|gb|EL170766.1|EL170766
EST:     CTTCTTTGCAACCGGGAAAAG                         GGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
genomic: CTTCTTTGCAACCGGGAAAAGgtacatctta ... attgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
EST: gi|47829107|gb|CK118791.1|CK118791
EST:     GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAG                         GGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
genomic: GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAGgtacatctta ... attgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGT
EST: gi|125274325|gb|EL288410.1|EL288410
EST:     GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAG                         GGAAACAGAAGAGAGACACGGTTACTGGGAATT
genomic: GGTATGCAGTTGGATCTCGAGTTCTAGAGCTTCTTTGCAACCGGGAAAAGgtacatctta ... attgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagagcaatgcagagttcaatcatgtcttatggatatattgtttcattgtttcagGGAAACAGAAGAGAGACACGGTTACTGGGAATTCTGTCTTTCGTTCACAGTACTGTGTGGAAAGTGTTGTTTGGAAAG
                                         tttcatt  CT-rich tract
                                 atatattgtttcatt  TA-rich tract