Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttgtgctaaatacataattaccatttgattgtaggatgaacgtgtaactaaactatggatgtttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAATACATGGACCTAAGGAAAGACTAATGCTTTACAGGAAATTGTTGTTGGA

Basic information

species Glycine max
transcript GLYMA08G39420.2
intron # 4
splice site 3'
intron type U2

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|193552196|gb|FK508953.1|FK508953
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACT                         GGAGATAAGGTTGAAATCGTCGTCCTAAATGCCAGTGGTATTC
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTC
EST: gi|193643170|gb|FK590760.1|FK590760
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACT                         GGAGATAAGGTTGAAATCGTCGTCCTAAATGCCAGTGGT
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGT
EST: gi|213592591|gb|DB961851.1|DB961851
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|209712774|gb|BW681630.1|BW681630
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|213601629|gb|DB980886.1|DB980886
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|6963774|gb|AW432467.1|AW432467
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         T
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacag-
EST: gi|6963774|gb|AW432467.1|AW432467
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         T
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacag-
EST: gi|6072538|gb|AW101925.1|AW101925
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|31470501|gb|CD412529.1|CD412529
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|193687919|gb|FK634422.1|FK634422
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACT                         GGAGATAAGGTTGAAATCGTCGTCCTAAATGCCAGTGGTATTCGTCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|209712773|gb|BW681629.1|BW681629
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|208163442|gb|GD959806.1|GD959806
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|10843502|gb|BF066791.1|BF066791
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACT                         GGAGATAAGGTTGAAATCGTCGTCCTAAATGCCAGTGGTATTCGTCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|12773264|gb|BG238191.1|BG238191
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|209720176|gb|BW651178.1|BW651178
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
EST: gi|192321731|gb|FK013165.1|FK013165
EST:     ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC                         GGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA
genomic: ATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACCgtaagtttgt ... tttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaccatttgattgtaggatgaacgtgtaactaaactatggatgtttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAATACATGGACCTAAGGAAAGACTAATGCTTTACAGGAAATTGTTGTTGGA
                             aactaaa  putative branch site (score: 2)
                                           tgttttt  putative PPT
                                          atgtttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttgtgctaaatacataattaccatttgattgtaggatgaacgtgtaactaaactatggatgtttttaacagGGAGATAAGGTTGAAATCGTCATCCTAAATGCCAGTGGTATTCATCGTGAATACATGGACCTAAGGAAAGACTAATGCTTTACAGGAAATTGTTGTTGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA