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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatcacatgctacttggttcaagagttttggtaatgcatgctattgtgactatttatatttttgtttctaaaatatcttctcttttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGTCTACATGAAGGCATTGAATTTAGCTGTTAATGGGAAAGTCACAGAATAC

Basic information

species Glycine max
transcript GLYMA13G06410.1
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|209706659|gb|BW667874.1|BW667874
EST:     GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGAC                         TTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
genomic: GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGACgtaatatcac ... ttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
EST: gi|192325549|gb|FK018445.1|FK018445
EST:     GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGAC                         TTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
genomic: GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGACgtaatatcac ... ttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
EST: gi|20812919|gb|BQ297397.1|BQ297397
EST:     GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGAC                         TTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
genomic: GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGACgtaatatcac ... ttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
EST: gi|120533886|gb|EH262019.1|EH262019
EST:     GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGAC                         TTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
genomic: GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGACgtaatatcac ... ttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
EST: gi|8827888|gb|BE211618.1|BE211618
EST:     GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGAC                         TTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
genomic: GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGACgtaatatcac ... ttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
EST: gi|16347357|gb|BI972952.1|BI972952
EST:     GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGAC                         TTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT
genomic: GCAAAAATAATTCAGCAGCCAAACGAAAAGCCTGCTGTGCGATTGAAGACgtaatatcac ... ttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctattgtgactatttatatttttgtttctaaaatatcttctcttttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGTCTACATGAAGGCATTGAATTTAGCTGTTAATGGGAAAGTCACAGAATAC
                          ttctaaa  putative branch site (score: 2)
                                  tatcttctcttttctt  CT-rich tract
           tatttatatttttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatatcacatgctacttggttcaagagttttggtaatgcatgctattgtgactatttatatttttgtttctaaaatatcttctcttttcttttcagTTTGATCAATCTGTACAATCTTTTGGAGACTCCATACTGCCAGTTTTATGTCTACATGAAGGCATTGAATTTAGCTGTTAATGGGAAAGTCACAGAATAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT