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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatcactctttctttcacacacacatagagatacacagccatagatttgaacacatgaaaagctctctaaattgtttctgacaagttaccatggatttttgtttgtggttttgacagGGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAG

Basic information

species Arabidopsis thaliana
transcript AT3G53970.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G53970.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G06650.1 (Glycine max), 3'ss of exon 7
gtaaaatcactctttctttcacacacacatagagatacaca-gccatagatttgaacacatgaaaagctctctaaattgtttctgacaagttaccatggatttttgtttgtggttttgacagGGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAG
                    | |       || | ||||   ||| |  | |       ||   |  | || |   |  |||||   ||| |    ||  | | |   |    | |  | |||||| | ||   ||| |||||||| |||||||| ||||| || ||||||||||| |||||||| ||   | | ||  ||||
------------------ctaaaggagttaagggttacatttgccttttactaccctgtatcttatac-ctgtggctaatttct---aagcttatctgtgtgtataaatcctatgtaaatagGGGTGTTCC---TCCCGGTGCGCGATTTGATCCATATGGACCTCCCGGTGTTCCTGGTTTTGAACCCAACAGATTTGCAAG

upper sequence: AT3G53970.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv08s0007g01340.t01 (Vitis vinifera), 3'ss of exon 7
gtaaaatcactctttctttcacacacacatagagatacacagccatagatttgaacacatgaaaagctctctaaattgtttctgacaagttaccatggatttttgtttgtggttttgacagGGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAG
||||  |   | ||    || | | | |         | |   |      |   |||||   | |  |      | | ||||    |  |     |  || || | | |    ||||| |  |   ||   || |||||||| || |||||||||||||| ||||| || ||||| |||||||||||     | || || ||
gtaag-ttgtttttaacctctctctctctctctctctccctctctctctctctcacacacacacacattggaggaatttttccttgagctgggttttaatattggatggcttgtttgaaacagAGGTGTT-CCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCCTGGTTTTGAGCCTAATAGATTTACCAG
















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|124917319|gb|EH991193.1|EH991193
EST:     CCATTTGGTGATGGTTCTGATCGACCTGGCTTCATGGGACCACCACACCC                         GGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGT
genomic: CCATTTGGTGATGGTTCTGATCGACCTGGCTTCATGGGACCACCACACCCgtaaaatcac ... gttttgacagGGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGT
EST: gi|47829346|gb|CK119030.1|CK119030
EST:     CCATTTGGTGATGGTTCTGATCGACCTGGCTTCATGGGACCACCACACCC                         GGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGT
genomic: CCATTTGGTGATGGTTCTGATCGACCTGGCTTCATGGGACCACCACACCCgtaaaatcac ... gttttgacagGGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctctaaattgtttctgacaagttaccatggatttttgtttgtggttttgacagGGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAG
             ttctgac  putative branch site (score: 2)
     taaattgttt  TA-rich tract