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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgttcaagctgtgttactttgataagaaacttattagttcttacagctgttctgtaaagtcacaaactgagaattttgattaactgtagTCTAGCAGCAGCTATGCTTCTTTTGAAGATGCTTCTTCAAGTGGAACTGTTGTCTTACGTGGCCAGCATGATGAGTCTGATTCTCCACAGACACCAAGGT

Basic information

species Glycine max
transcript GLYMA13G34970.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G34970.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G15220.1 (Arabidopsis thaliana), 3'ss of exon 15
gtattgttcaagctgtgttactttgataagaaacttattagttcttacagctgttctgtaaagtcacaaactgagaattttgattaactgtagTCTAGCAGCAGCTATGCTTCTTTTGAAGATGCTTCTTCAAGTGGAACTGTTGTCTTACGTGGCCAGCATGATGAGTCTGATTCTCCACAGACACCAAGGT
    | |  ||  | ||  || ||  ||| |   |    ||   ||| |   |  |||     | | ||| |||     ||  |    ||||||||||| |||| |||||  ||||||| ||||||||  ||||||||||||||||  | ||||| ||| | ||||| ||||  || || |  || || |  |
---gtatgaaatttctggcaccttcttaacatcttatacagaaatta-attaggcctggtgtattataaa-tgactccatttctactttgtagTCTAGCGGCAGGTATGCAGCTTTTGATGATGCTTCAGCAAGTGGAACTGTTGTTGTCCGTGGACAGTACGATGACTCTGGATCACCTCGAACCCCGAAAT

upper sequence: GLYMA13G34970.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv19s0014g02310.t01 (Vitis vinifera), 3'ss of exon 15
----------gtattgttcaagctgtgttactttgataagaaacttatta-gttcttacagctgttctgtaaagtca-----caaactga--gaattttgattaac--tgtagTCTAGCAGCAGCTATGCTTCTTTTGAAGATGCTTCTTCAAGTGGAACTGTTGTCTTACGTGGCCAGCATGATGAGTCTGATTCTCCACAGACACCAAGGT
          || |||||||     |   | | | |||   |    || | |||  || | || || ||    |  |       |  |||  | ||||| |    |  ||||||||||||  |  ||||||||| |||| ||||||||| | ||||| ||||||||  | ||| | || |||||||| ||||||||||| |  || |||| ||
gtatgtgactgtgttgttcatatgataaaaatataatacttagtaaatgaagtttctatatcttttgtgcggtgctagcccttgacttgattgcatttttacatgccatgtagTCTAGCAATACATATGCTTCTCTTGAGGATGCTTCTACCAGTGGCACTGTTGTTATTCGTAGTCATCATGATGATTCTGATTCTCCTCGAACGCCAAAGT
















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|208063253|gb|GD865411.1|GD865411
EST:     GATCTCCAAAAGGATCAAGGTCATCTGCGTTTCGTGACCAGAGCTCTCAG                         TCTAGCAGCAG
genomic: GATCTCCAAAAGGATCAAGGTCATCTGCATTTCGTGACCAGAGCTCTCTGgtattgttca ... ttaactgtagTCTAGCAGCAG
EST: gi|7692036|gb|AW760152.1|AW760152
EST:     AAGGTCATCTGCATTTCGTGACCAGAGCTCTCTG                         TCTAGCAGCAGCTATGCTTCTTTTGAAGATGCTTCTTCAAGTGGAACTGTT
genomic: AAGGTCATCTGCATTTCGTGACCAGAGCTCTCTGgtattgttca ... ttaactgtagTCTAGCAGCAGCTATGCTTCTTTTGAAGATGCTTCTTCAAGTGGAACTGTT
EST: gi|22526039|gb|BU084841.1|BU084841
EST:     GATCTCCAAAAGGATCAAGGTCATCTGCATTTCGTGACCAGAGCTCTCTG                         TCTAGCAGCAGCT
genomic: GATCTCCAAAAGGATCAAGGTCATCTGCATTTCGTGACCAGAGCTCTCTGgtattgttca ... ttaactgtagTCTAGCAGCAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttcttacagctgttctgtaaagtcacaaactgagaattttgattaactgtagTCTAGCAGCAGCTATGCTTCTTTTGAAGATGCTTCTTCAAGTGGAACTGTTGTCTTACGTGGCCAGCATGATGAGTCTGATTCTCCACAGACACCAAGGT
                                           gattaac  putative branch site (score: 2)
                                   agaattttgattaa  TA-rich tract