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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagctcttttctatattcaacaacttgctacttttatactattatcaaatttaaatgaaacaatcatggcacatttgtctgatatgttttctatgtttgtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTACCATCAATTCATATTGAGAGCAAGTGCTGCTAAGGCTCTTGGATCATTCA

Basic information

species Glycine max
transcript GLYMA16G27140.1
intron # 3
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|4295198|gb|AI442299.1|AI442299
EST:     GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCAT                         TGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCCATTGCAGCCTTCTAC
genomic: GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCATgtgagtagct ... gtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTAC
EST: gi|21677365|gb|BQ629716.1|BQ629716
EST:     GTCTAGGAGCTGCTGTCATGTACAACCCACAGAAGGCCTGGGATGACCAT                         TGGATCTTTTGGGTTGGACC
genomic: GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCATgtgagtagct ... gtttgttcagTGGATCTTTTGGGTTGGACC
EST: gi|10848346|gb|BF070849.1|BF070849
EST:     GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGNGATGACCAT                         TGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCCATTGCAGCCTTCTAC
genomic: GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCATgtgagtagct ... gtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTAC
EST: gi|208154696|gb|GD958087.1|GD958087
EST:     GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCAT                         TGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCCATTGCAGCCTTCTA
genomic: GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCATgtgagtagct ... gtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTA
EST: gi|193353871|gb|FK321627.1|FK321627
EST:     GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCAT                         TGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCCATTGCAGCCTTCTAC
genomic: GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCATgtgagtagct ... gtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTAC
EST: gi|13789683|gb|BG652274.1|BG652274
EST:     GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCAT                         TGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCCATTGCAGCCTTCTAC
genomic: GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCATgtgagtagct ... gtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTAC
EST: gi|209729770|gb|BW658575.1|BW658575
EST:     GTCTAGGAGCTGCTGTCATGTACA-CCAACAGAAGGCCTGGGATGACCAT                         TGGATCTTTTGGGT
genomic: GTCTAGGAGCTGCTGTCATGTACAACCAACAGAAGGCCTGGGATGACCATgtgagtagct ... gtttgttcagTGGATCTTTTGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgaaacaatcatggcacatttgtctgatatgttttctatgtttgtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTACCATCAATTCATATTGAGAGCAAGTGCTGCTAAGGCTCTTGGATCATTCA
                       gtctgat  putative branch site (score: 4)
                                          tttgttt  putative PPT
                            atatgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtagctcttttctatattcaacaacttgctacttttatactattatcaaatttaaatgaaacaatcatggcacatttgtctgatatgttttctatgtttgtttgttcagTGGATCTTTTGGGTTGGACCATTTATTGGAGCAGCAATTGCAGCCTTCTACCATCAATTCATATTGAGAGCAAGTGCTGCTAAGGCTCTTGGATCATTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT