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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTCAAAATATAAAGAAGATTCTTGGACTGCAGCAAAACAAAGAGTACACAAGCGTGAAGTCTTTGAGATATGGTCATTTGATGATTATGGCTGATCAGgtgggtttatttagatatcgtacttttgttttgctttgtctattgctttcacggagattataatggttcaactttctgggtggttcag

Basic information

species Glycine max
transcript GLYMA10G11610.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G11610.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0064g00560.t01 (Vitis vinifera), 5'ss of exon 6
AATTCAAAATATAAAGAAGATTCTTGGACTGCAGCAAAACAAAGAGTACACAAGCGTGAAGTCTTTGAGATATGGTCATTTGATGATTATGGCTGATCAGgtgggtttatttagatatcgtacttttgttttgctt-----tgtctattgctttcacggagattataatg---gttcaactttctgggtggttcag----------------
|||||| || || ||| ||||||||||||| ||||||   || |||||    ||  | ||||| || |||||||||||||||||||| ||| |||||||||| ||   |   |  |   ||  |  || ||| |||     |||   | || ||  |  | |   ||||    || |    ||    || ||| |                 
AATTCAGAACATCAAGCAGATTCTTGGACTACAGCAAGGGAAGGAGTATGACAGTATCAAGTCATTAAGATATGGTCATTTGATGATAATGACTGATCAGgttggccaaac-aattccagttttcctgctttacttgcgactgttattggcctttgccaatagagtaatatgagtccttggttaacagtagtttatttcttctcttacacag
















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|208215428|gb|GE012457.1|GE012457
EST:     CAAGCGTGAAGTCTTTGAGATATGGTCATTTGATGATTATGGCTGATCAG                         GATCACGATGGTTCCCACATCAAAGGG
genomic: CAAGCGTGAAGTCTTTGAGATATGGTCATTTGATGATTATGGCTGATCAGgtgggtttat ... ggtggttcagGATCACGATGGTTCCCACATCAAAGGG
EST: gi|208210421|gb|GE015612.1|GE015612
EST:     CAAGTGTGAAGTCTTTGAGATATGGTCATTTGATGATTATGGCTGATCAG                         GATCACGATGGTTCCCACATCAAAGGGCTATTGATAAACTTCATTCATTCG
genomic: CAAGCGTGAAGTCTTTGAGATATGGTCATTTGATGATTATGGCTGATCAGgtgggtttat ... ggtggttcagGATCACGATGGTTCCCACATCAAAGGGCTATTGATAAACTTCATTCATTCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTCAAAATATAAAGAAGATTCTTGGACTGCAGCAAAACAAAGAGTACACAAGCGTGAAGTCTTTGAGATATGGTCATTTGATGATTATGGCTGATCAGgtgggtttatttagatatcgtacttttgttttgctttgtctattgctttcacggagattataatggttcaactttctgggtggttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT