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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaagggttcttgttaaattccttgctatcaaatgataacaaacagtttcagattttaaaatgtaatttctgaattgcttgttgatcatgtcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTTCAATTGTTGATAACAGTCTCTCAAAAGGAGTAGATATCTCTCCAGTGAA

Basic information

species Glycine max
transcript GLYMA16G19580.1
intron # 20
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|192302190|gb|FG996612.1|FG996612
EST:     CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAG                         GGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
genomic: CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAGgtacttatct ... tcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
EST: gi|58014702|gb|CX701444.1|CX701444
EST:     CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAG                         GGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
genomic: CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAGgtacttatct ... tcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
EST: gi|58025067|gb|CX711808.1|CX711808
EST:     CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAG                         GGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
genomic: CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAGgtacttatct ... tcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
EST: gi|192302191|gb|FG996613.1|FG996613
EST:     CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAG                         GGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
genomic: CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAGgtacttatct ... tcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
EST: gi|22523089|gb|BU081900.1|BU081900
EST:     CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAG                         GGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT
genomic: CCATCCTGAATTTAAATCAAGACCAGGAAAACCTTCTCCTTTGTTCTTAGgtacttatct ... tcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcagattttaaaatgtaatttctgaattgcttgttgatcatgtcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTTCAATTGTTGATAACAGTCTCTCAAAAGGAGTAGATATCTCTCCAGTGAA
                                  tgttgat  putative branch site (score: 4)
       attttaaaatgtaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagggttcttgttaaattccttgctatcaaatgataacaaacagtttcagattttaaaatgtaatttctgaattgcttgttgatcatgtcaattgcagGGTTCATTGGAGCAGCATGTGGACAATTGGATGCTGTCTTACAGCGCTCTTCAATTGTTGATAACAGTCTCTCAAAAGGAGTAGATATCTCTCCAGTGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - gttcttg
- - - - - - - - - - ccttgct
- - - - - - - - - - - - - - - - - - - acaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgt