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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgggttgatacttgatcaatcaacgttgataacttgtggtatttattccattattattcagtttctccctaaattatttgtttgcataataatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAGTTAAG

Basic information

species Glycine max
transcript GLYMA10G42940.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G42940.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 2
tgggttgatacttgatcaatcaacgttgataacttgtggtattta-ttccattattattcagtttctccctaaattatttgtttgcataataatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAGTTAAG
| ||| || | |   |  |  |      |    ||||   |  |  ||       |||  | | |   |   |||  |     |  ||    |  |  |||| ||||||||||| |||||||| ||||| |||||||| || ||||| ||||| |||
taggtaga-agtcattgcagtatgaaaaaggctttgttaaacatggttggggctctatataatattgactagaatcttcctcctttatgtgcacatcacagAGTACAGAACTGTCTCTGGAGTCGCTGGGCCATTGGTTATCCTTGAGAAAGTCAAG
















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|120533616|gb|EH261749.1|EH261749
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|120533425|gb|EH261558.1|EH261558
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|209697688|gb|BW655589.1|BW655589
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|120533188|gb|EH261321.1|EH261321
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|208058325|gb|GD856858.1|GD856858
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|13478635|gb|BG508033.1|BG508033
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|120532915|gb|EH261048.1|EH261048
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|120533316|gb|EH261449.1|EH261449
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|213596831|gb|DB964094.1|DB964094
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|120533627|gb|EH261760.1|EH261760
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|213591852|gb|DB973417.1|DB973417
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|19053577|gb|BM732244.1|BM732244
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|16346337|gb|BI971932.1|BI971932
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|209727398|gb|BW669851.1|BW669851
EST:     GACTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGATAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|120533687|gb|EH261820.1|EH261820
EST:     GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
EST: gi|213595962|gb|DB955998.1|DB955998
EST:     GGCTGAAAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG                         AATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG
genomic: GGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGGgtatgtgtct ... aatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccattattattcagtttctccctaaattatttgtttgcataataatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAGTTAAG
                     ccctaaa  putative branch site (score: 3)
                        taaattatttgtttgc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgggttgatacttgatcaatcaacgttgataacttgtggtatttattccattattattcagtttctccctaaattatttgtttgcataataatgttgcagAATACAGAACTGTATCTGGAGTTGCTGGACCATTGGTCATTCTTGACAAAGTTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA