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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtttgatttattaacaaaaaattaaatgttgctttactctcaatttatttctgtattctattattgtgctatatccacttaaaattttgttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAAGATATTGGGCGTCAG

Basic information

species Glycine max
transcript GLYMA16G10360.1
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|10255097|gb|BE822863.1|BE822863
EST:     AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAG                         TTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
genomic: AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAGgtgtctacca ... ttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
EST: gi|17402137|gb|BM178919.1|BM178919
EST:     AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAG                         TTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
genomic: AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAGgtgtctacca ... ttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
EST: gi|58022276|gb|CX709017.1|CX709017
EST:     AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAG                         TTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
genomic: AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAGgtgtctacca ... ttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
EST: gi|58022560|gb|CX709301.1|CX709301
EST:     AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAG                         TTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
genomic: AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAGgtgtctacca ... ttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
EST: gi|7478537|gb|AW666305.1|AW666305
EST:     AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAG                         TTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
genomic: AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAGgtgtctacca ... ttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAA
EST: gi|6667589|gb|AW279040.1|AW279040
EST:     AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTGATCAG                         TTGAAATCTTCACTCCTGCTGCACGTAGATGGAACAAGTCCAAG-AGCTGA
genomic: AGTTGGCTTATCGGGTTTCAGAAGATGATGTCACACGTGCTTGTAATCAGgtgtctacca ... ttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCA-GTAGCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttctgtattctattattgtgctatatccacttaaaattttgttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAAGATATTGGGCGTCAG
                                        ttttgtttttt  CT-rich tract
                         tatatccacttaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgtttgatttattaacaaaaaattaaatgttgctttactctcaatttatttctgtattctattattgtgctatatccacttaaaattttgttttttacagTTGAAATCTTCACTCCTGCTCCACATAGATGGAACAAGTCCAGTAGCTGAAGATATTGGGCGTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - aaaaaat
- - - - - - - - - - - - - -tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccactta