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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgattttggaataggctattgtgtttatgtgactttggtctttctttgttttcattaagaaattattggctgactttttgtatgttattggtgcttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATGCAAGGAAGCAATGCCCGTTTCTTGGCTTGTGAAGTGTAACAGAACTGCA

Basic information

species Glycine max
transcript GLYMA10G28530.3
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G28530.3 (Glycine max), 3'ss of exon 12
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 3'ss of exon 12
gtatgt--tgattttggaataggctattgtgtttatgtgactttggtctttctttgttttcattaagaaattattggctgactttttgtatgttattggtgcttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATGCAAGGAAGCAATGCCCGTTTCTTGGCTTGTGAAGTGTAACAGAACTGCA-
|||||   | ||  || || |   |  |  |     ||| |||  || || |  ||        |||   ||| ||  ||  || |||  || |  |  ||    |  ||||| |||| || || |||| ||||||||||||||||||| | || || |||||||| ||||||||||| || |||||  | |||  |  | | ||| ||   
gtatgcaatcatcctgaaacaattttatcagcaccagtgtctt--gttttcccatgca------aagttgttactgattg--ttattgc-tgctgcttctgtcaat--cagAATTGAAGGGAGTACCAGTTGAGATTTTGGTGAAATTGATCCCGGAACATGCAAGAAAGCAATGCCCCTTCCTTGGGCTATGAT-TCCATCTGAAATGTGA
















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|9983502|gb|BE657610.1|BE657610
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|151395928|gb|EV265805.1|EV265805
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTTCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|26047916|gb|CA784556.1|CA784556
EST:     TTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTTCAA-TCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGGTCCAGAGCATG
genomic: TTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTT-CAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|21677182|gb|BQ629533.1|BQ629533
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|213603858|gb|DB982158.1|DB982158
EST:     TATTTAATTTCAAATCCCATG                         AACTGAAAGGCT-CCCCAGCTGAGATTTTGGTGAAATTGGATCCAGAGCAT
genomic: TATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGG-TGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCAT
EST: gi|27426035|gb|CA937555.1|CA937555
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|16342133|gb|BI967728.1|BI967728
EST:     TTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: TTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|9205358|gb|BE331582.1|BE331582
EST:     CTGGC-AAATGGACGATTCCTTCCAACAATATTTAATTTCCAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAAATTTTGGTGAAA
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAA
EST: gi|7029921|gb|AW459704.1|AW459704
EST:     GATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: GATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|207786927|gb|GD755386.1|GD755386
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTT
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTT
EST: gi|16104780|gb|BI892520.1|BI892520
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|19453358|gb|BM954768.1|BM954768
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|10710608|gb|BF010326.1|BF010326
EST:     TTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAATATCCCATG                         AACTGAAAGGTGTCCCACCTGAGATTTTGGTGAAATTGGTT
genomic: TTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAA-ATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTT
EST: gi|208146826|gb|GD947195.1|GD947195
EST:     GATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: GATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|31307101|gb|CD392304.1|CD392304
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|18039146|gb|BM307440.1|BM307440
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|22929643|gb|BU546782.1|BU546782
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|10253276|gb|BE821042.1|BE821042
EST:     GATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: GATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|214005861|gb|DB988702.1|DB988702
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|214004064|gb|DB984970.1|DB984970
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|254331482|gb|GR843439.1|GR843439
EST:     TTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: TTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|24206278|gb|BU965531.1|BU965531
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|208058584|gb|GD857720.1|GD857720
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|193643115|gb|FK589431.1|FK589431
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|23729240|gb|BU762707.1|BU762707
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
EST: gi|254344096|gb|GR851006.1|GR851006
EST:     CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATG                         AACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG
genomic: CTTGCCAAATGGCCGATTCCTTCCACCACTATTTAATTTCAAATCCCATGgtatgttgat ... cttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcattaagaaattattggctgactttttgtatgttattggtgcttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATGCAAGGAAGCAATGCCCGTTTCTTGGCTTGTGAAGTGTAACAGAACTGCA
                   ggctgac  putative branch site (score: 3)
     attaagaaattatt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttgattttggaataggctattgtgtttatgtgactttggtctttctttgttttcattaagaaattattggctgactttttgtatgttattggtgcttgtaccagAACTGAAAGGTGTCCCAGCTGAGATTTTGGTGAAATTGGTTCCAGAGCATGCAAGGAAGCAATGCCCGTTTCTTGGCTTGTGAAGTGTAACAGAACTGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA