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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgctgattctgacctttctttcttgtattatgttatgtttttaaaatatctatttttccatgatgccttctaatctatgtccataaatataatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGGGGACCTGAGTCGATCTATGATGTTGACCACAGAGTTTCTGAGAAAACCC

Basic information

species Glycine max
transcript GLYMA01G02480.1
intron # 12
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|58024369|gb|CX711110.1|CX711110
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|31310299|gb|CD395502.1|CD395502
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|254336792|gb|GR842971.1|GR842971
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|58021287|gb|CX708029.1|CX708029
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|58018001|gb|CX704743.1|CX704743
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|16284148|gb|BI945931.1|BI945931
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|31462999|gb|CD405027.1|CD405027
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTGGAATTCGCATCTGTAGATCTGGAACGTCATACGAGATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|58022383|gb|CX709124.1|CX709124
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG
EST: gi|17022026|gb|BM093060.1|BM093060
EST:     AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAG                         TTAAAATTCGCATCTGTATATCTGGAACTTCATACAAAATATGTTCCAGGG
genomic: AGCTTGTTGCTGCTAGGACATTTCGAGCTGGCTCTCTTAGTCTTCGACAGgtcagtatga ... taatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatatctatttttccatgatgccttctaatctatgtccataaatataatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGGGGACCTGAGTCGATCTATGATGTTGACCACAGAGTTTCTGAGAAAACCC
                       ttctaat  putative branch site (score: 2)
                                   tccataaatataattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgctgattctgacctttctttcttgtattatgttatgtttttaaaatatctatttttccatgatgccttctaatctatgtccataaatataatttgcagTTAAAATTCGCATCTGTAGATCTGGAACTTCATACAAAATATGTTCCAGGGGGACCTGAGTCGATCTATGATGTTGACCACAGAGTTTCTGAGAAAACCC

-tgctgat
- - - - -ctgacct
- - - - - - - - - - - - - - - -tgttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgtc