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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatatcaatctatcatgtgtcctataaagctgtggcttgcttttctgtctataatgacttgtctcaatctttgttcagTCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACTCATATAAAG

Basic information

species Arabidopsis thaliana
transcript AT4G04955.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G04955.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G173413_T01 (Zea mays), 3'ss of exon 7
-----------gtagatatcaatctat-----catgtgtcctataaagctgtggcttgcttttctgtctataatgacttgtctcaatctt-tg--ttcagTCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACTCATATAAAG
            |||| ||    | ||       |   |||| |||| | |  | |    |  |   ||       ||    |   | |  ||  | ||||| ||||||||||| ||||| |||||||| ||||| ||||||||    ||||||||  | 
gctaagagtccttagagattgggccatgctccttttcctcctttaaaccagcagatatactaacaaactgatccctctcacttttgtttcatggttccagTCTTTTATGTGCCCCTCAGGCATCAACGACTTTCCCATGACAAATTCAACTCATATCGAA
















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|116378121|gb|EG420713.1|EG420713
EST:     ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAG                         TCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACT
genomic: ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAGgtagatatca ... ctttgttcagTCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACT
EST: gi|116378124|gb|EG420716.1|EG420716
EST:     ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAG                         TCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACT
genomic: ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAGgtagatatca ... ctttgttcagTCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACT
EST: gi|116378122|gb|EG420714.1|EG420714
EST:     ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAG                         TCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACT
genomic: ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAGgtagatatca ... ctttgttcagTCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACT
EST: gi|124729897|gb|EH821299.1|EH821299
EST:     ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAG                         TCCTTTATGTGCCCTTCAGGAATCAACG
genomic: ACTCAAGTGCTCTTGAGTCTCTCTTAGATGCTGGAGTTCTTGGTCTCAAGgtagatatca ... ctttgttcagTCCTTTATGTGCCCTTCAGGAATCAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaagctgtggcttgcttttctgtctataatgacttgtctcaatctttgttcagTCCTTTATGTGCCCTTCAGGAATCAACGATTTTCCAATGACAAACATCACTCATATAAAG
                                            tctttgttc  CT-rich tract
                        tctataat  TA-rich tract