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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atattccgaggtggtggtgagagcataggttgagttaatgacagtgggatgaagttttattttttaactatgagtggtacatgaatgaatggctgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTTGCTCCTTCAAGGGGTCCCTCAGAACATACCACTAGTTCTCTATTTGTTA

Basic information

species Glycine max
transcript GLYMA05G02740.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G24740.1 (Arabidopsis thaliana), 3'ss of exon 1
-------atattccgaggtggtggtgagagcataggttgagttaatgacagtgggatgaagttttattttttaactatgagtggtacatgaatgaatggctgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTTGCTCCTTCAAGGGGTCCCTCAGAACATACCACTAGTTCTCTATTTGTTA---
       |  ||   || | ||    |   |   |   ||||    |  ||  ||||   |     ||||  | || |  ||  |   |  ||||||   ||||||||||||||||||| |||||||||| |||||  |||| | ||| |||||||||||  ||||  | | ||| |||||  ||   | ||| ||||| | |||||   
acccttaaggttttaagatagta--aatgactctgaacgagtcggcg-tagaaggatagtggcaggttttc-atctgtctgttatg-gtacatgaata--tgtgtagGCTCAGGTAGGAATGTTTTGTGGGCAAGAGATTGGAAATATATCAAGCTTTGCATCTTCCGGAGCTCCTTCAGACAAT---AGTAGCTCTCTTTGTGTTAAGG

upper sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 1
-atattccgaggtggtggtgagagcataggttgagttaatgacagtgggatgaagttttattttttaactatgagtggtacatgaatgaatggct--gtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTTGCTCCTTCAAGGGGTCCCTCAGAACATACCACTAGTTCTCTATTTGTTA
 | ||  |  || | |  |      |  ||   || ||    | | || |  || ||||| ||||  |   ||||||| ||||||||| ||||||  |||||||||||| ||||  |||||||||||||||| ||||||| | |  |||||||||| ||||||| ||  | ||| || || || ||||||||| | ||||| |
aaaatcactgggagct--tacttctaagggacaaggtatcagc-gaggtacaaaattttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACTAGTTCTATGTTTGTAA
















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|213591049|gb|DB973790.1|DB973790
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAGgtaacttttt ... ggctgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|151394814|gb|EV264685.1|EV264685
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAGgtaacttttt ... ggctgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|193679351|gb|FK619757.1|FK619757
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAGgtaacttttt ... ggctgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|208271891|gb|GE069163.1|GE069163
EST:     AGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: AGCGAGATTGGGCTGGGACATCCCTGAAGTTCCCAAGgtaacttttt ... ggctgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggatgaagttttattttttaactatgagtggtacatgaatgaatggctgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTTGCTCCTTCAAGGGGTCCCTCAGAACATACCACTAGTTCTCTATTTGTTA
                ttttaac  putative branch site (score: 2)
      aagttttattttttaa  TA-rich tract