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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattcatatatcatggtcatgttatcattttttatccatgcagaagccagatataccatttgacagatatgtaattttcttttgttataaacatgatttcgtgctatatgtatatttaataatagGTGACATCAGAACGACGACAAATTGAAACCCCTTCTACTCCTAGTCTGGATAACACCATGCCACCACCTCCGTCATATGAAGAAGTGAATGGTGTCTATG

Basic information

species Glycine max
transcript GLYMA12G04210.1
intron # 7
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|193412302|gb|FK381229.1|FK381229
EST:     GTGCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAA                         GTGACATCAGAACGACGACAAATTGAAACCCCTCCTACTCCTAGTCTGGAT
genomic: GTGCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAAgtaagtattc ... ttaataatagGTGACATCAGAACGACGACAAATTGAAACCCCTTCTACTCCTAGTCTGGAT
EST: gi|207708297|gb|GD692079.1|GD692079
EST:     GTGCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAA                         GTGACATCAGAACGACGACAAATTGAAACCCCTCCTACTCCTAGTCTGGAT
genomic: GTGCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAAgtaagtattc ... ttaataatagGTGACATCAGAACGACGACAAATTGAAACCCCTTCTACTCCTAGTCTGGAT
EST: gi|193322310|gb|FK289008.1|FK289008
EST:     GTGCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAA                         GTGACATCAGAACGACGACAAATTGAAACCCCTCCTACTCCTAGTCTGGAT
genomic: GTGCCTATCATCAAATAGTCCTACAAATACTTGATCAGCTTGAGGGAGAAgtaagtattc ... ttaataatagGTGACATCAGAACGACGACAAATTGAAACCCCTTCTACTCCTAGTCTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaattttcttttgttataaacatgatttcgtgctatatgtatatttaataatagGTGACATCAGAACGACGACAAATTGAAACCCCTTCTACTCCTAGTCTGGATAACACCATGCCACCACCTCCGTCATATGAAGAAGTGAATGGTGTCTATG
                                           atttaat  putative branch site (score: 4)
                               tgctatatgtatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtattcatatatcatggtcatgttatcattttttatccatgcagaagccagatataccatttgacagatatgtaattttcttttgttataaacatgatttcgtgctatatgtatatttaataatagGTGACATCAGAACGACGACAAATTGAAACCCCTTCTACTCCTAGTCTGGATAACACCATGCCACCACCTCCGTCATATGAAGAAGTGAATGGTGTCTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT