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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgggatattttcttaaacaataatctcaactgctgccattagttggtcttaattagttctaattttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG

Basic information

species Glycine max
transcript GLYMA13G40960.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 5
--------gttgggatattttcttaaacaataatctcaactgctgccattagttggtcttaattagttctaattttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG
          ||  |   | | || |  | | |  ||   || |        |||    ||| |   |||  | |    ||||||||||||||||| ||||| || ||||||||||| ||||||||  | |||||||| ||||| || |||||||| ||||| ||||| ||||
gtttgcaaaatgataccctctttttattacttacttctgttgatcttcgcctttgtgactaacttactct--tctaccggacagGATTTTGCTTACCTCAACCTCGGAGGTATATGGAGATCCTCTCATTCATCCCCAGCCTGAGAGCTATTGGGGAAATGTCAACCCAATTG

upper sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 6
-gttgggatattttcttaaacaataatctcaactgctgccattagttggtc--ttaattagttctaatt--ttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG
  ||||||| |    | |    ||    | |||      ||| | ||  ||  || ||||  |    ||  |  || ||||||| |||||||||||||||||||| |||||||| |||||||||| |||||||||| |||| || |||||||| ||||||||||| || |
gtttgggatttgacttcattttattcctttaaccaggatcataaatttctcaatttattaaattatgttaatgtttaacagGATATTGCTTACATCAACTTCAGAAGTATATGGAGATCCTCTTGAGCATCCCCAAACTGAGAGCTATTGGGGAAATGTTAACCCAATAG
















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|151406393|gb|EV276208.1|EV276208
EST:     GTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAG                         GATTTTGCTTACATCAACTTCAGAGGTATATGGGGATTCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAGgttgggatat ... ttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|151404362|gb|EV274172.1|EV274172
EST:     GTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAG                         GATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAGgttgggatat ... ttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|213590294|gb|DB963857.1|DB963857
EST:     GTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAG                         GATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAGgttgggatat ... ttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|19052776|gb|BM731443.1|BM731443
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTTGCAAAGCGAGTAGGAGCAAGgttgggatat ... ttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatctcaactgctgccattagttggtcttaattagttctaattttattgacagGATTTTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGTTATTGGGGCAATGTTAACCCTATTG
                                     ttctaat  putative branch site (score: 2)
                                           ttttatt  CT-rich tract
                           tcttaattagttctaa  TA-rich tract