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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgttttaccttttgaaagctgggtacatgccatcatgtcaatacagtttgcttcaagtttctaattgctgccatttactcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG

Basic information

species Glycine max
transcript GLYMA20G24790.1
intron # 11
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|22930981|gb|BU548120.1|BU548120
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|192298924|gb|FG987669.1|FG987669
EST:     TCACTTGTTCAAACTTGTTACCGGTTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: TCACTTGTTCAAACTTGTTACCGGTT-GTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|9205515|gb|BE331739.1|BE331739
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAACGTATTAGAGTACATCTTTCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|192332344|gb|FK026009.1|FK026009
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTTAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|151394585|gb|EV264456.1|EV264456
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|6914739|gb|AW396269.1|AW396269
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTTCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|21601181|gb|BQ611512.1|BQ611512
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|254327333|gb|GR836942.1|GR836942
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|308098474|gb|HO760215.1|HO760215
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|308098470|gb|HO760211.1|HO760211
EST:     ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCGGTTGTTCTTGCTGCATCTAAAGACAGgtattttgtt ... tcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgtcaatacagtttgcttcaagtttctaattgctgccatttactcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG
                         ttctaat  putative branch site (score: 2)
                                     ccatttactcccttct  putative PPT
                        tttctaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttgttttaccttttgaaagctgggtacatgccatcatgtcaatacagtttgcttcaagtttctaattgctgccatttactcccttctagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG