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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatgcctcaaatctgtcatcatgatgtagattccattctatggattttagaatgtttcccttatgtcttcctggttctttaattttacttgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGATGAAGAGCGTTTGGAGTGGAAAGAGCTATCTGCCTTGCTTAAA

Basic information

species Glycine max
transcript GLYMA16G30190.2
intron # 28
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|20813165|gb|BQ297643.1|BQ297643
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|9204949|gb|BE331173.1|BE331173
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|7233777|gb|AW569120.1|AW569120
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|18720655|gb|BM523266.1|BM523266
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|6227802|gb|AW156401.1|AW156401
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|14126584|gb|BG791022.1|BG791022
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|7146673|gb|AW508595.1|AW508595
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|7691707|gb|AW759830.1|AW759830
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|19348791|gb|BM893323.1|BM893323
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|10233815|gb|BE802703.1|BE802703
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
EST: gi|254334421|gb|GR844206.1|GR844206
EST:     GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAG                         GTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT
genomic: GTTCTTCCTTATCTTCCAAGAAGAATGTTTCAGAACGTTTAAAAGAAGAGgtactatgct ... tgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttagaatgtttcccttatgtcttcctggttctttaattttacttgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGATGAAGAGCGTTTGGAGTGGAAAGAGCTATCTGCCTTGCTTAAA
                                ctttaat  putative branch site (score: 4)
                                      ttttactt  CT-rich tract
                              ttctttaattttactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttatgcctcaaatctgtcatcatgatgtagattccattctatggattttagaatgtttcccttatgtcttcctggttctttaattttacttgtccatcagGTAAGAGATGCAAAAATAAAAGTTCTAGCAAGCCTAAAACAAGAAACTGATGAAGAGCGTTTGGAGTGGAAAGAGCTATCTGCCTTGCTTAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - -cctcaaa
- - - - - - tctgtca
- - - - - - - - - - catgatg
- - - - - - - - - - - - - - - - -ccattct