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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaaattagcataccatgtttatgacttggatgtctgcattttgctgtaagcctgtaaagtgtacagtcgtttttggttctttatgttgctgtttctacttttactagctgatgtttttgcaaatttatatacaacttggtaagatggcttattatttactaattacatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGCAAAG

Basic information

species Glycine max
transcript GLYMA08G19760.1
intron # 2
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|20075473|gb|BQ094256.1|BQ094256
EST:     CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTT                         ATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
genomic: CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTTgtgagtaaat ... acatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
EST: gi|151406516|gb|EV276331.1|EV276331
EST:     CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTT                         ATTTTATATTGCTCAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
genomic: CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTTgtgagtaaat ... acatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
EST: gi|22525712|gb|BU084523.1|BU084523
EST:     CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTT                         ATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
genomic: CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTTgtgagtaaat ... acatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
EST: gi|9900560|gb|BE609528.1|BE609528
EST:     CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTT                         ATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
genomic: CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTTgtgagtaaat ... acatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
EST: gi|58020307|gb|CX707049.1|CX707049
EST:     CCATTT-ATGGAA-GAAATGGACAGAAATT-TCCTTGCTGCCAATGTTTT                         ATTTTATA-TGCACAAAC-TGCAAACCCAAGGCAAGCTATTA-TGTGGGGG
genomic: CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTTgtgagtaaat ... acatgcacagATTTTATATTGCAC-AACTTGC-AACCCAAGGCAAGCTATTATTGT-GGGG
EST: gi|58016763|gb|CX703505.1|CX703505
EST:     ATTTAAT-GAAGGGAAATGGACAGAAA-TCTTCCTTGCTGCCAATGTTTT                         ATTTTATA-TGCACAAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAG
genomic: ATTTAATGGAA-GGAAATGGACAGAAATTC-TCCTTGCTGCCAATGTTTTgtgagtaaat ... acatgcacagATTTTATATTGCAC-AACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAG
EST: gi|22524413|gb|BU083224.1|BU083224
EST:     CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTT                         ATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC
genomic: CCATTTAATGGAAGGAAATGGACAGAAATTCTCCTTGCTGCCAATGTTTTgtgagtaaat ... acatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaatttatatacaacttggtaagatggcttattatttactaattacatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGCAAAG
                                     tactaat  putative branch site (score: 1)
                             ttattatttactaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtaaattagcataccatgtttatgacttggatgtctgcattttgctgtaagcctgtaaagtgtacagtcgtttttggttctttatgttgctgtttctacttttactagctgatgtttttgcaaatttatatacaacttggtaagatggcttattatttactaattacatgcacagATTTTATATTGCACAACTTGCAACCCAAGGCAAGCTATTATTGTGGGGAGCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG