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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacttctttctactttttgcttaatcttattgccaacacttttttttctctaaatcttcttccctttcatactctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAATCTGATATCCGAAATTGGTGCTTCCAGGTCTTCCAAGGCCTTTCTTATA

Basic information

species Arabidopsis thaliana
transcript AT5G45430.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G45430.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os02g47220.3 (Oryza sativa), 3'ss of exon 2
gtatacttctttctactttttgcttaatcttattgccaacacttttttttctctaaatcttcttc------cctttcatactctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAATCTGATATCCGAAATTGGTGCTTCCAGGTCTTCCAAGGCCTTTCTTATA
             |||||   | |      ||  || ||   ||  ||  ||||  |||   ||        ||  |||  |||  |||||||||||||| ||||| |||||||||||| |    |||| |||  ||||  | ||  |||| ||||||||||| ||| | || || |  ||| | || |
------------gtacttaaggatgtcatataccgcaaaagtttaattagctctgtatcgcttttgttaagtctcccatgttcttccagGAGTGCAATCTCTACCAACTTATGAAGGATAGAGTCAAGCCTTTCTCAGAGGCAGAAGTCCGGAATTGGTGCTTTCAGATTTTTCAGGCTCTTGCATACA
















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|86059416|gb|DR355173.1|DR355173
EST:     AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
EST: gi|116444408|gb|EG487000.1|EG487000
EST:     AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
EST: gi|116444419|gb|EG487011.1|EG487011
EST:     AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
EST: gi|124933080|gb|EL010277.1|EL010277
EST:     TTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: TTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattgccaacacttttttttctctaaatcttcttccctttcatactctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAATCTGATATCCGAAATTGGTGCTTCCAGGTCTTCCAAGGCCTTTCTTATA
                      ctctaaa  putative branch site (score: 3)
             cttttttttctctaaa  CT-rich tract
              ttttttttctctaaat  TA-rich tract