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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaaatatctccttgttatggttgaatccaattgggccaagttaaggagtctgattctgatattttccaggccccactgattgctttttattttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACT

Basic information

species Glycine max
transcript GLYMA10G35960.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35960.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G165176_T01 (Zea mays), 3'ss of exon 5
gaaaatatctccttgttatggttgaat--ccaattgggccaagttaaggagtctgattctgatattttccaggccccactgattgctttt-tattttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACT
    ||| |  |||| | |     |||  |||  |    || ||  |  |   |||   || | ||||       | |   | |||   | |   || |  ||| || || ||||| || ||||| || |||||||| |||||| | |||||||| || |||||||||||||||
---gatagcctcttggtgttaaccaataaccacatcaaacatgtagaatacggtgaccatgttcttttgtgtatgctaagaactgcacatgttcattctgcagGCACGTTTACTCTCTCGAATCTTGGTATGTTTGGAGTTGATAGGTTTGATGCAATACTGCCACCTGGAACT

upper sequence: GLYMA10G35960.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G34430.1 (Arabidopsis thaliana), 3'ss of exon 3
gaaaatatctccttgttatggttgaatccaattgggccaagtt-aaggagtctgattctgatattttccaggccccactgattgctttttatttt-------ttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACT
       |   | |  ||       ||  || ||     ||||  || | ||        | ||| |    | |    || ||   |||   ||        ||  |||||| |||||||| || || || ||||||||||| |||||||| |||||||||||||| || |||||||| 
------gtaatcctactactagaatattgaagtgatttgagtttgagtaatccttcaactagattgtttgagtcttgttgtttttatttcccttccgggtaattgcagGTACCTTCACTCTCTCTAACCTAGGAATGTTTGGCGTTGATCGGTTTGATGCTATTCTACCCCCTGGAACA

upper sequence: GLYMA10G35960.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 3
gaaaat----atctccttgttatgg-ttgaatccaattgggccaagttaaggagtctgattctgatattttccaggccccactgattgctttttattttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACT
 |||||    ||  | |    ||   |||  ||| |    |  |  | |   |||||     || |   || |||       || ||| ||  |  ||  |  ||||||||||||||| || || || |||||||||||||| ||||| ||||| || ||||||||||||||||||
-aaaattggcatgccatgaccattccttggttcctaccttgttatttcatcaagtctatccatgtttaatttcagatgt--atgtttgattgctggtt--tgcagGTACTTTCACTCTTTCAAACCTTGGAATGTTTGGTGTGGATCGGTTTGACGCAATTCTGCCACCTGGAACT

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|13790727|gb|BG653318.1|BG653318
EST:     GGTTGACAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTG                         GTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATG
genomic: GGTTGACAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTGgtatagtaat ... ttttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATG
EST: gi|208057351|gb|GD850900.1|GD850900
EST:     GGTTGACAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTG                         GTACTTTCACTCTGTCCAATCTGGGAATGTTT
genomic: GGTTGACAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTGgtatagtaat ... ttttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTT
EST: gi|193417002|gb|FK382036.1|FK382036
EST:     CGAAGCAGCTTCAACCTCATGAATACAACACTG                         GTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATG
genomic: CGAAGCAGCTTCAACCTCATGAATACAACACTGgtatagtaat ... ttttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATG
EST: gi|208235385|gb|GE029669.1|GE029669
EST:     GGTTGACAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTG                         GTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATG
genomic: GGTTGACAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTGgtatagtaat ... ttttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagtctgattctgatattttccaggccccactgattgctttttattttttatagGTACTTTCACTCTGTCCAATCTGGGAATGTTTGGTGTTGATCGCTTTGATGCTATTCTGCCACCTGGAACT
                             cactgat  putative branch site (score: 3)
                                   ttgctttttatttttt  CT-rich tract
                                tgattgctttttattt  TA-rich tract