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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtaatcaatgaaataatgtccattttcaatcttttgttttctttccaacttccagtgttgcctcatctatacttcctttttttccgcattgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAATAAAGCAGATTCTG

Basic information

species Glycine max
transcript GLYMA12G09250.1
intron # 6
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|7591500|gb|AW707232.1|AW707232
EST:     GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|208244567|gb|GE036214.1|GE036214
EST:     GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|7587973|gb|AW703779.1|AW703779
EST:     GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|14011898|gb|BG726820.1|BG726820
EST:     CCAAGATTCATCCTATGACAATAATATCAG                         GTTTCCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: CCAAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|7685521|gb|AW756169.1|AW756169
EST:     TCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: TCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|15200734|gb|BI424502.1|BI424502
EST:     GGCAGAAAAGCTGGTTGCAACCAAGATTCCTCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGCGCTCGTAATGCTTTGTTGGAGAAAGGT-
genomic: GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAA-GGTT
EST: gi|213601247|gb|DB956527.1|DB956527
EST:     GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|18692987|gb|BM521835.1|BM521835
EST:     AAGATTCATCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: AAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
EST: gi|261497099|gb|GT185167.1|GT185167
EST:     GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAG                         GTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG
genomic: GGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAGgttcatttct ... ttgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccaacttccagtgttgcctcatctatacttcctttttttccgcattgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAATAAAGCAGATTCTG
                          tacttcctttttttcc  CT-rich tract
                                            attgttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtaatcaatgaaataatgtccattttcaatcttttgttttctttccaacttccagtgttgcctcatctatacttcctttttttccgcattgtttttagGTTTTCGAATGGCAGCAGAGTGTGCTCGTAATGCTTTGTTGGAGAAGGTTGTGGACAATAAAGCAGATTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - -caatgaa
- - - - - - - - - - - - - - - - - - - - - - -tccaact
- - - - - - - - - - - - - - - - - - - - - - - - - - tccagtg