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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaatattcatctgactttagttatgatgtttgagtatgtgtgatcttcagtctgatgacagtttggttatgttattttgcagCCTAAATGGAACAATGCACTTCTTGAGATGTTCCAAATTGATTACGTTGGGAAGTCTCCATACATCAACTGCTTACCGTCTCTCTACCACCACAGATTAG

Basic information

species Arabidopsis thaliana
transcript AT1G07630.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G07630.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0004g04600.t01 (Vitis vinifera), 3'ss of exon 2
-----------gtatgaaatattcatc-tgactttagttatgatgtttgagtatgtgtgatcttcagtctgatg-acagtttggttatgttattttgcagCCTAAATGGAACAATGCACTTCTTGAGATGTTCCAAATTGATTACGTTGGGAAGTCTCCATACATCAACTGCTTACCGTCTCTCTACCACCACAGATTAG
            | |    |||      |  || ||   |  |||||    | ||       ||| || |  |  |||||||   | ||  ||  |||||||||||||||||||||||||||| |||||||||  ||| || || ||||| |  ||||||||||||| |||  | || ||||| ||||||||||||||||
agggagacccttttttttgtatctgctattgctctaagaaaaatgttcagttctgaaattctttctgtgtcttacacagtttctctttgaaatcctgcagCCTAAATGGAACAATGCACTTCTAGAGATGTTCAGAATAGACTATGTTGGCACCTCTCCATACATCAGCTGTCTCCCATCTCTTTACCACCACAGATTAG
















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|86084457|gb|DR380216.1|DR380216
EST:     AAGGCTCCTTAAAGGTCACAAGAGCGTTTGGTGCTGGTTTCCTTAAGCAG                         CCTAAATGGAACAATGCACTTCTTGAGATGTTCCAAATTGATTACGTTGGG
genomic: AAGGCTCCTTAAAGGTCACAAGAGCGTTTGGTGCTGGTTTCCTTAAGCAGgtatgaaata ... tattttgcagCCTAAATGGAACAATGCACTTCTTGAGATGTTCCAAATTGATTACGTTGGG
EST: gi|124825736|gb|EH910602.1|EH910602
EST:     AAGGCTCCTTAAAGGTCACAAGAGCGTTTGGTGCTGGTTTCCTTAAGCAG                         CCTAAATGGAACAATGCACTTCTTGAGATGTTCCAAATTGATTACGTT
genomic: AAGGCTCCTTAAAGGTCACAAGAGCGTTTGGTGCTGGTTTCCTTAAGCAGgtatgaaata ... tattttgcagCCTAAATGGAACAATGCACTTCTTGAGATGTTCCAAATTGATTACGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgagtatgtgtgatcttcagtctgatgacagtttggttatgttattttgcagCCTAAATGGAACAATGCACTTCTTGAGATGTTCCAAATTGATTACGTTGGGAAGTCTCCATACATCAACTGCTTACCGTCTCTCTACCACCACAGATTAG
                      gtctgat  putative branch site (score: 4)
                                            ttatttt  putative PPT
                                       ttatgttatttt  TA-rich tract