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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaatagatagattagaggatatgaataagccaaactagtttaagaacacttcttagtttttaatgtgttgttgttgcacacctcttatctctgcagAGTTCCAAACATCAAGTTCAACGTTGCCAAACTTCTGCAATCCCTCATCCCCATAGTCGACCAATCA

Basic information

species Arabidopsis thaliana
transcript AT1G25490.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25490.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S214_34V6.1 (Physcomitrella patens), 3'ss of exon 10
---------------------gtacaataga--tagattagaggatatgaataagccaaactagt-ttaagaacacttcttagtttttaatgtgttgttgttgcacacctcttatctctgcagAGTTCCAAACATCAAGTTCAACGTTGCCAAACTTCTGCAATCCCTCATCCCCATAGTCGACCAATCA
                      |  ||| ||  | |||||   |  |  | |    || | | || ||| | |   ||     | ||   |   | | |  | | |     ||       ||| ||||||||||||||||| ||||| |||||| | ||||||||| | || || || || ||     | 
gtaccttagtttgctctccatatgtaatggaacttgattatcagtca--actgcaacagattggtattaggtaggttttcggatcttgtgtaattagctaattctctgtgattgcgatgacagGGTTCCAAACATCAAGTTTAACGTCGCCAAAATGCTGCAATCCATGATTCCGATTGTTGATTCCACT
















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|124827835|gb|EH912701.1|EH912701
EST:     TCACATGCTCTAAGTTTCTTCCTGTGGTTTGTTGAAGCATCAAAAGACAG                         AGTTCCAAACATCAAGTTCAACGTTGCCAAACTTCTGCAATCCCTCATCCC
genomic: TCACATGCTCTAAGTTTCTTCCTGTGG-TTGTTGAAGCATCAAAAGACAGgtacaataga ... atctctgcagAGTTCCAAACATCAAGTTCAACGTTGCCAAACTTCTGCAATCCCTCATCCC
EST: gi|164077421|gb|ES113633.1|ES113633
EST:     CCTGTGGTTGTTGAAGCATCAAAAGACAG                         AGTTCCAAACATCAAGTTCAACGTTGCCAAACTTCTGCAATCCCTCATCCC
genomic: CCTGTGGTTGTTGAAGCATCAAAAGACAGgtacaataga ... atctctgcagAGTTCCAAACATCAAGTTCAACGTTGCCAAACTTCTGCAATCCCTCATCCC
EST: gi|47830292|gb|CK119976.1|CK119976
EST:     ATCACATGCTCTAAGTTTCTTCCTGTGGTTGTTGAAGCATCAAAAGACAG                         AGTTCCAAAACATCAAGTTCAA
genomic: ATCACATGCTCTAAGTTTCTTCCTGTGGTTGTTGAAGCATCAAAAGACAGgtacaataga ... atctctgcagAGTTCCAAA-CATCAAGTTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaacacttcttagtttttaatgtgttgttgttgcacacctcttatctctgcagAGTTCCAAACATCAAGTTCAACGTTGCCAAACTTCTGCAATCCCTCATCCCCATAGTCGACCAATCA
                ttttaat  putative branch site (score: 3)
                                     cacctcttatctct  putative PPT
        ttcttagtttttaat  TA-rich tract