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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgtatatattttgatatatttcaactaaattttttattttctcctcttcataacaatttgttccacttaaatcatcttaattcattttctaactgtagGTTAAACAAAGAGCCACCAAATCTGACTTTTAGGAAGAAAGACAAAGGTGGACTTAATCTCACCTCAACTGTCACCACAACACATCTGGATCTCGAGACT

Basic information

species Glycine max
transcript GLYMA06G15180.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15180.2 (Glycine max), 3'ss of exon 6
lower sequence: AT4G39520.1 (Arabidopsis thaliana), 3'ss of exon 6
tatgtatatattttgatatatttcaac---taaattttttattttctcctcttcataacaatttgttccacttaaatcatcttaattcattttctaactgtagGTTAAACAAAGAGCCACCAAATCTGACTTTTAGGAAGAAAGACAAAGGTGGACTTAATCTCACCTCAACTGTCACCACAACACATCTGGATCTCGAGACT
   ||||| ||| |  |||||  ||||   || |   | ||| ||      ||  |   |  | ||   |||      ||| |      ||  |||  |||||||| ||||| |||||||||||| | || |||||||| ||||||||||||||  | ||||| || || || ||| |    ||||| || || || || || 
---gtatagattgtt-tatataacaacctttatacactgtatatttgatcgtttctggtagatagtctgactcg----atcatggactgttg-cta--tgtagGTTGAACAAGGAGCCACCAAATTTAACATTTAGGAAAAAAGACAAAGGTGGTATCAATCTAACTTCTACAGTCGCTGTCACACACCTTGACCTTGACACC

upper sequence: GLYMA06G15180.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0031g01620.t01 (Vitis vinifera), 3'ss of exon 6
--tatgtatatattttgatatatttcaactaaattttttattttctcctcttcataacaatttgttccacttaaatcatcttaattcattttctaactgtagGTTAAACAAAGAGCCACCAAATCTGACTTTTAGGAAGAAAGACAAAGGTGGACTTAATCTCACCTCAACTGTCACCACAACACATCTGGATCTCGAGACT
    |||  |  || || | |||    |     ||  | |     ||  |||    ||   ||||     ||  |     ||| ||  || |||      ||||||||||| || |||||||||||||| || ||||||||||| || |||||  ||||| |||| || || || ||||  ||| |||||||||| || |||
gacttgttgaagttctgctgtatgatcatctgcttcataaaagagtcgacttgtggacctcttgtatt--ttgtacttatttattttgttgtctggaaacagGTTAAACAAGGAACCACCAAATCTGACCTTCAGGAAGAAAGATAAGGGTGGGATTAATTTCACATCTACAGTTACCAACACAAATCTGGATCTTGAAACT
















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|151396172|gb|EV266049.1|EV266049
EST:     ATAACTCACAAGCGTCTTATAGAAAAAGAGCTAGAGGGATTTGGTATAAG                         GTTAAACAAAGAGCCACCAAATCTGACTTTTAGGAAGAAAGACAAAGGTGG
genomic: ATAACTCACAAGCGTCTTATAGAAAAAGAGCTAGAGGGATTTGGTATAAGgtaaggtaac ... ctaactgtagGTTAAACAAAGAGCCACCAAATCTGACTTTTAGGAAGAAAGACAAAGGTGG
EST: gi|254325516|gb|GR838397.1|GR838397
EST:     ATAACTCACAAGCGTCTTATAGAAAAAGAGCTAGAGGGATTTGGTATAAG                         GT-AAACAAAGAGCCACCAAATCTGACTTT-AGGAAGAAAGACA
genomic: ATAACTCACAAGCGTCTTATAGAAAAAGAGCTAGAGGGATTTGGTATAAGgtaaggtaac ... ctaactgtagGTTAAACAAAGAGCCACCAAATCTGACTTTTAGGAAGAAAGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttcataacaatttgttccacttaaatcatcttaattcattttctaactgtagGTTAAACAAAGAGCCACCAAATCTGACTTTTAGGAAGAAAGACAAAGGTGGACTTAATCTCACCTCAACTGTCACCACAACACATCTGGATCTCGAGACT
                                           ttctaac  putative branch site (score: 1)
                                     ttcattttct  CT-rich tract
                       ttaaatcatcttaatt  TA-rich tract