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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctagcttgtgttaatcgtacaagtgaaactatatatgttctgttaatactattcttctctgcctgccactaaacccgtttgtgattttttttctaatgatagGTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGGCATG

Basic information

species Arabidopsis thaliana
transcript AT2G44070.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G44070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G51570.1 (Glycine max), 3'ss of exon 7
gtaagctagcttgtgttaatcgtacaagtgaaactatatatgttctgttaatactattcttctctgcctgccactaaacccgtttgtgattttttttctaatgatagGTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGGCATG-
      |      | || ||  ||||  | | || |      || ||  || | | |  ||  ||  ||    || | || |     | | | | |  | |||  || |||||||||||||||||||||||| ||||||||||||||||||||||||||||| 
------tgaggcatttttatt-taca--taacacaacgccaatt-tgccaaaattgtcatttccttact----ctgaccctgca---gtTCTCTATATTGATGCCAGCTATGATGCTACACCTTCAGATTACGTTTCCATGATAATCACAGATTATGGCATGG

upper sequence: AT2G44070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G07460.1 (Glycine max), 3'ss of exon 6
gtaagctagcttgtgttaatcgtacaagtgaaactatatatgttctgttaatactattcttctctgcctgccactaaacccgtttgtgattttttttctaatgatagGTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGGCATG
||||||    | || || || | |||    | ||   ||            ||  ||| | |||   ||  || |  ||   | | | ||||        |||  || |||||||| ||||||||||||||  |||| |||||  |||||||||||||||||
gtaagc--attcgtattgataggaca--ccacaccgaat------------tatcatt-tcctcactctaacattggacttctctttaattt-------gatggcagTTATGATGCAACACCTTCAGATTATGTTTCAATGATTGTCACAGATTATGGCATG

upper sequence: AT2G44070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA19G05900.1 (Glycine max), 3'ss of exon 6
gtaagctagcttgtgttaatcgtacaagtgaaactatatatgttctgttaatactattcttctctgcctgccactaaacccgtttgtgattttttttctaatgatagGTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGGCATG
                         |||      |||  ||    |   ||  | | |  ||  |||||  | ||||    |    |  | |||  | | |||  || |||||||| ||||||||||||||  |||| |||||  |||||||||||||||||
-----------------------gtaagcattcatattgataggataccaaaccgaattgtcattgcctcactctaacattgcacttc-tctttaatttgatggcagTTATGATGCAACACCTTCAGATTATGTTTCAATGATTGTCACAGATTATGGCATG

upper sequence: AT2G44070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0083g00170.t01 (Vitis vinifera), 3'ss of exon 5
gtaagctagcttgtgttaatcgtacaagtgaaactatatatgttctgttaatactattcttctctgcctgccactaaacccgtttgtgattttttttctaatgatagGTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGGCATG
        |   ||||| |  ||  ||  || |    |      ||  |     | |||  | |  | | ||| || |  ||  | |  ||   ||| |  | | || |||||||| ||||||||||||||  |||| ||||| || |||||||||||||||
--------gtaagtgtttagggtttaaacgataggggacccacacttat----ttgttcacccccacttacca-tacaagcgcctttttttggatttttgtttacagATATGATGCAACACCTTCAGATTATGTTTCGATGATTATAACAGATTATGGCATG

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|124709553|gb|EH800955.1|EH800955
EST:     AGTTTTTGAACTTGAT                         GTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGG
genomic: AGTTTCTGAACTTGATgtaagctagc ... ctaatgatagGTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actattcttctctgcctgccactaaacccgtttgtgattttttttctaatgatagGTATGATGCTACACCTTCAGATTACATTTCCATGATAATCACAGATTATGGCATG
                                           ttctaat  putative branch site (score: 2)
                                     ttttttttct  CT-rich tract
                                    attttttttctaatga  TA-rich tract