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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttccaaataagaaatttcataagattttttgttaatatttcaatgataatctcagtgtatgtttctctgccttcattagttcttagctaatccctaattgcataatgttacattgtagGAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGAAAGTTTATGTTAAAGCTCCATCTTTTCTTTCAATTCACATGGGGGTTAA

Basic information

species Glycine max
transcript GLYMA02G34060.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 7
gttggttccaaataagaa-atttcataagattttttgttaatatttcaatgataatctcagtgtatgtttctctgccttcattagttcttagctaatccctaattgcataatgttacattgtagGAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGAAAGTTTATGTTAAAGCTCCATCTTTTCTTTCAATTCACATGGGGGTTAA
    ||   | | || ||    | ||   | | |    ||   |   || || ||    ||  ||| |||      |||  || ||   |   || |    | ||| ||  || |    | |||| ||| |  | || || |     ||||| ||||||||||| || ||||||||||| || || || |||||||| |||||||||||||||||||| |||||
----gtaagagaaaacaatgacttatgtaactgtcgaatagcttcctaaagaaaa----agaatat-tttacaaatcttgttttgtaagtg--tacttaaaacttgtattttgctgtgctttagGGAAGCTGTTAAAAGGAGAAAAGCTTCCTAAAGAAGAAGAAAATTTCCAGAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAA

upper sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 7
gttggttccaaataagaaatttcataagattttttgttaatatttcaa-tgataatctcagtgtatgtttctctgccttcattagttct-----tagctaatc--cctaattgcataatgttacattgtagGAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGAAAGTTTATGTTAAAGCTCCATCTTTTCTTTCAATTCACATGGGGGTTAA
||| ||||   | | ||  |||   | | || |  |||| | |  ||| |      ||   ||||  || | |||| |  || ||||||     ||  ||||   || || |  | | |  || |||| ||||||| |  | ||||| |    |||||| |||||||| | |||||| || || || |||||||| || ||||| |||||||| |||||||||||||||||
gttagttctgca-aggatcttttggatgtttatgagttattttgccaagttcctgccttgttgtaccttgcactgc-tatatcagttctctcagtaattaattaaccaaactaaaaattcatatattgcagGAAAGCTTTTAAAGGGTGAAGAACTTCCAAAAGAAGAGGTGAACTTTCAAAAGGTCTATGTTAAGGCCCCATCATTTCTTTCCATTCACATGGGGGTTAA
















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|192316622|gb|FK008243.1|FK008243
EST:     GTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG                         GAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGA
genomic: GTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTGgttggttcca ... tacattgtagGAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGA
EST: gi|192316621|gb|FK008242.1|FK008242
EST:     GTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG                         GAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGA
genomic: GTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTGgttggttcca ... tacattgtagGAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctgccttcattagttcttagctaatccctaattgcataatgttacattgtagGAAAGTTACTGAAGGGCGTTCCACTTCCGAAAGAAGAAGAGAACTTCCAGAAAGTTTATGTTAAAGCTCCATCTTTTCTTTCAATTCACATGGGGGTTAA
                            ccctaat  putative branch site (score: 3)
                                      ataatgtta  TA-rich tract