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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttctttgctcttttgcccatttagacatttgatacctcgcataatagtgacttgtaaattgtgttctctttgacgatgtttgttggttgtttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTTGCTGCATCTGTAAGAATTATCTATGGAG

Basic information

species Glycine max
transcript GLYMA13G41120.1
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|208180403|gb|GD977608.1|GD977608
EST:     TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAG                         GTTCATGCTGATTTAAGGAAATGGG
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTAAGGAAATGGG
EST: gi|6071447|gb|AW100834.1|AW100834
EST:     TTTGNGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCATGCTCAAGAG                         GTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
EST: gi|18040397|gb|BM308691.1|BM308691
EST:     TTGGGCCATTGGAACAAGGAAGGGT-GCAACTCCTGCTCAGGCTCAAGAA                         GTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGA-GTT
genomic: TTGGGCCATTGGAACA-GGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
EST: gi|193542030|gb|FK494504.1|FK494504
EST:     TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAG                         GTTACAATGCTGATTTA
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTT-CA-TGCTGATTTA
EST: gi|10843979|gb|BF067325.1|BF067325
EST:     TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCANGCTCAAGAG                         GTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGGTGAAGTT
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
EST: gi|192308239|gb|FK002751.1|FK002751
EST:     TTTGGACCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAG                         GTTCATGCTGATT
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATT
EST: gi|208308523|gb|GE102923.1|GE102923
EST:     TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAG                         GTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
EST: gi|192300263|gb|FG987840.1|FG987840
EST:     TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAG-CTCAAGAG                         GTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGT
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGT
EST: gi|151409950|gb|EV279758.1|EV279758
EST:     TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAG                         GTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTT
EST: gi|193508667|gb|FK465823.1|FK465823
EST:     TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAG                         GTTCATGCTGATTTA
genomic: TTTGGGCCATTGGAACAGGAAAGGTTGCAACTCCTGCTCAGGCTCAAGAGgtatgcttgt ... tttggcctagGTTCATGCTGATTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgacttgtaaattgtgttctctttgacgatgtttgttggttgtttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTTGCTGCATCTGTAAGAATTATCTATGGAG
                       ctttgac  putative branch site (score: 4)
       ttgtaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttctttgctcttttgcccatttagacatttgatacctcgcataatagtgacttgtaaattgtgttctctttgacgatgtttgttggttgtttggcctagGTTCATGCTGATTTAAGGAAATGGGTTCATGACAATGTGAGTGCTGAAGTTGCTGCATCTGTAAGAATTATCTATGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - -ttgccca
- - - - - - - - - - - - - - - - - -cctcgca
- - - - - - - - - - - - - - - - - - - - - - - - tgacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt