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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGCTACACCAAACTTGACTCTGTTGGAAACGACGACTTCTTCTGTCGTTTCGAGTACAATTCCACTACCGGCGCGTTTGATCCTGACAGAGTCACCGTgtatgtgttcctacgactctctgttactttattcgagaagaaaatactgattgaatgatggaactattatcggttgaattgaggcttttttggaaattag...

Basic information

species Arabidopsis thaliana
transcript AT4G39100.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39100.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA06G01180.2 (Glycine max), 5'ss of exon 1
GTAGCTACACCAAACTTGACTCTGTTGGAAACGACGACTTCTTCTGTCGTTTCGAGTACAATTCCACTACCGGCGCGTTTGATCCTGACAGAGTCACCGTgtatgt--gttcctacgactctctgttactttat-tcgagaagaaaatactgattgaatgatggaactattatcggttgaattgaggcttttttggaaattag-
  |||||||| || || ||  |||| ||||||||||| |||||||||||||| |||||||||||| | |||||||| ||  ||||||| |||||  ||||||  ||   |  ||||  |  | | |   | ||| |   |    ||   ||| |     | |  |      ||   |||   |  |  |||  | | | || | 
AGAGCTACACGAAGCTCGATGCTGTCGGAAACGACGATTTCTTCTGTCGTTTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccatcactactccgatatatatatatatattctgttataagctctgct---gcgctaaattcgcaataaattgttctt-gtttttggtaggatttcgt

upper sequence: AT4G39100.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA06G01180.3 (Glycine max), 5'ss of exon 2
--GTAGCTACACCAAACTTGACTCTGTTGGAAACGACGACTTCTTCTGTCGTTTCGAGTACAATTCCACTACCGGCGCGTTTGATCCTGACAGAGTCACCGTgtatgt--gttcctacgactctctgttactttat-tcgagaagaaaatactgattgaatgatggaactattatcggttgaattgaggcttttttggaaattag
    |||||||| || || ||  |||| ||||||||||| |||||||||||||| |||||||||||| | |||||||| ||  ||||||| |||||  ||||||  ||   |  ||||  |  | | |   | ||| |   |    ||   ||| |     | |  |      ||   |||   |  |  |||  | | | ||  
CAAGAGCTACACGAAGCTCGATGCTGTCGGAAACGACGATTTCTTCTGTCGTTTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCgtgtgagtccatcactactccgatatatatatatatattctgttataagctctgct---gcgctaaattcgcaataaattgttctt-gtttttggtaggatttc-

upper sequence: AT4G39100.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA04G01140.1 (Glycine max), 5'ss of exon 2
GTAGCTACACCAAACTTGACTCTGTTGGAAACGACGACTTCTTCTGTCGTTTCGAGTACAATTCCACTACCGGCGCGTTTGATCCTGACAGAGTCACCGTgtatgt-----gttcctacgactctctgttactttattcgag-aagaaaatactgattgaatgatggaactattatcggttgaattgaggcttttttggaaattag
  |||||||| || || ||  |||| ||||||||||| |||||||||||||| |||||||||||| | |||||||| ||  ||||||| |||||  | ||||  ||       | || |||      | || ||| ||        | | |  |   ||    |       | |||   |||   |     ||||| | | ||   
AGAGCTACACGAAGCTCGATGCTGTCGGAAACGACGATTTCTTCTGTCGTTTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCTGTgtgagtccatcactactccgagatatagatattttttttttctgttatagtctttgctgcgctaaatttgaaatatatattgttcttg---tttttggtagat---

upper sequence: AT4G39100.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv03s0038g00160.t01 (Vitis vinifera), 5'ss of exon 2
GTAGCTACACCAAACTTGACTCTGTTGGAAACGACGACTTCTTCTGTCGTTTCGAGTACAATTCCACTACCGGCGCGTTTGATCCTGACAGAGTCACCGTgtatgtgt----tcctacgactctctgttactttattcgagaagaaaatactgattgaatgatggaactattatcggttgaattgaggcttttttggaaattag
  |||||||| || |||||  ||||||| |||||||| |||||||||||||| |||||||||||  |||| || || ||  |||| || |||||  | ||||| || |    |  | ||    | || |   || || |   |   ||||     |   |  |   |    |||      |||| |||| |  |    ||||| 
AGAGCTACACTAAGCTTGATGCTGTTGGGAACGACGATTTCTTCTGTCGTTTTGAGTACAATTCGTCTACAGGAGCATTCAATCCCGATAGAGTGGCTGTgtacgtttcgaattttccggtattttgatcaatttttggttcaattaatatgatctagtttcttttatatatatataacaaatttaggcatgct----aattat

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|125096676|gb|EL153393.1|EL153393
EST:     ATCCTGGCAGAGTCACCGT                         GTTCTGCAAGTGTGAGATGCCGTATAACCCAGATGACTTGATGGTGCAATG
genomic: ATCCTGACAGAGTCACCGTgtatgtgttc ... ctgtttgcagGTTCTGCAAGTGTGAGATGCCGTATAACCCAGATGACTTGATGGTGCAATG
EST: gi|125029879|gb|EL102148.1|EL102148
EST:     TGACAGAGTCACCGT                         GTTCTGCAAGTGTGAGATGCCGTATAACCCAG
genomic: TGACAGAGTCACCGTgtatgtgttc ... ctgtttgcagGTTCTGCAAGTGTGAGATGCCGTATAACCCAG