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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCTTGTATCAGGTGCTGCACTGGGATTGGAAGGGCAGgtatatgtctaattattttttttcccagcatttaagttgaataatgcttcatagagcgacaagtactcctgtgtgcttgattatatcacataatttgaggattaactatggaaacttttactgcag

Basic information

species Glycine max
transcript GLYMA14G02260.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G02410.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv19s0090g01020.t01 (Vitis vinifera), 5'ss of exon 7
CCTCTTGTATCAGGTGCTGCACTGGGATTGGAAGGGCAGgtatat-----gtctaatt----attttttt-tcccagcatttaagttgaataatgcttcat------agagcgacaagtactcctgtgtgcttgattatatcacat---aatttgaggattaactatg----gaaacttttactgcag
|||||||| |||||||||||  ||||||||||||||||||||| |      |||  ||    ||| | || | |  |  ||  |  |  | |||   | ||      |  |  |   | | |    | | | | ||| | |    |   || |    |  |||||       |||| ||||  |  ||
CCTCTTGTTTCAGGTGCTGCTTTGGGATTGGAAGGGCAGgtatgttatgcatctgctttcatattctgttattcttgtgttacacctatagaatttcttatgtgaataagggaatgggaagtgtaatcttcatcattttttgttgtggaaactcatagcataactgcatcatgaaattttttgtatag
















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|18690719|gb|BM519567.1|BM519567
EST:     GTATCAGGTGCTGCACTGGGATTGGAAGGGCAG                         CTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGATGCCTCTTTCCA
genomic: GTATCAGGTGCTGCACTGGGATTGGAAGGGCAGgtatatgtct ... tttactgcagCTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGATGCCTCTTTCCA
EST: gi|208156442|gb|GD957676.1|GD957676
EST:     CCTCTTGTATCAGGTGCTGCACTGGGATTGGGAGGGCAG                         CTTACTGTCTACAATTACAATGGTGGTCCTTG
genomic: CCTCTTGTATCAGGTGCTGCACTGGGATTGGAAGGGCAGgtatatgtct ... tttactgcagCTTACTGTCTACAATTACAATGGTGGTCCTTG
EST: gi|5688245|gb|AI941260.1|AI941260
EST:     CCTCTTGTATCAGGTGCTGCACTGTGATTGGAAGGGCAG                         CTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGATGCCTCTTT
genomic: CCTCTTGTATCAGGTGCTGCACTGGGATTGGAAGGGCAGgtatatgtct ... tttactgcagCTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGATGCCTCTTT
EST: gi|192312357|gb|FK005361.1|FK005361
EST:     CCTCTTGTATCAG-TGCTGCACTGGGATTGGAAGG-CAG                         CTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGATGCCTCTT
genomic: CCTCTTGTATCAGGTGCTGCACTGGGATTGGAAGGGCAGgtatatgtct ... tttactgcagCTTACTGTCTACAATTACAATGGTGGTCCTTGCTATCGATGCCTCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTCTTGTATCAGGTGCTGCACTGGGATTGGAAGGGCAGgtatatgtctaattattttttttcccagcatttaagttgaataatgcttcatagagcgacaagtactcctgtgtgcttgattatatcacataatttgaggattaactatggaaacttttactgcag

- - - - - - - TGCTGC
- - - - - - - - - - - - - - TGGAAG