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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatcttagttaatttgcacaagttgctatgtgctctaaattatgcaattgaaattggaaccgctttgtgtcaaatgtttgatgtttggtatttggtgtttgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCAATGATGAAGTCAAAAGTCATTTACAG

Basic information

species Glycine max
transcript GLYMA01G21900.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G21900.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g22020.1 (Oryza sativa), 3'ss of exon 3
--------------------gtgagtatcttagttaatttgcacaagttgctatgtgctctaa-attatgcaattgaaattggaaccgctt---tgtgtcaaatgtttgatgtttggtatttggtgtttgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCAATGATGAAGTCAAAAGTCATTTACAG
                    ||||  | ||             ||| || |  | | || ||  |  |  || |    |||     |||||      || || |    | |  || ||     |  | || ||  || ||||| || |||||| |||||||||||||||| |||||||| ||||| || || ||||| || ||||| |||
gttagtgccattttttctcagtga-cagctcgaccggacaaaccaaattacattatcctatatcaacaaacagtactgattaatctcgcttgtactagttaattacgagctaattagtcccgtgcttatgcagTAGCGACGCCCAAGCAGATCCGGGAGCTGATGAAGGTGGATGGCCTCACCAACGACGAGGTCAAGAGCCATTTGCAG

upper sequence: GLYMA01G21900.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G25550.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagtatcttagttaatttgcacaagttgctatgtgctctaaattatgcaattgaaattggaaccgctttgtgtcaaatgtttgatgtttggtatttggtgtttgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCAATGATGAAGTCAAAAGTCATTTACAG
            || ||| |    ||     |   || |  | | |    ||||    ||   |    | | | |  ||| |||| |  |||  |  |      || || ||| |||||||| ||||| || || || |||||||| |||||  |||| ||||| ||||| |||||||||||||||
------------gtaaatatattaaatcctttgattgtttgagaat-cataatt----ttacgagaagtatatatttaatttttgttcattgtcaaata-----tgcagTTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGGTTTAACTAATGACGAAGTTAAAAGTCATTTACAG

upper sequence: GLYMA01G21900.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
--gtgagtat-cttagtta-atttgcacaagttgctatgtgctctaaa--ttatgcaattgaaattggaaccgctttgtgtcaaatgt--ttgatgtttggtatttggtgtt-tgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCAATGATGAAGTCAAAAGTCATTTACAG
  |||  ||| ||| |  | | |||      | | ||  |  | | ||  | ||     | ||| ||| |  |  |||  | |||| |  ||||| |||     ||  | |  || || ||| || || || ||||||||||| ||||||||||||||||| || || ||||||||||||||||| |||||||||
gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattgaattaaatttgattgatttttttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG

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|192318502|gb|FK006174.1|FK006174
EST:     ATTGCACAAGAGATTCTTGCATGCACTTCAACAACTTGGGGGTGCAGACT                         CTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCA
genomic: ATTGCACAAGAGATTCTTGCATGCACTTCAACAACTTGGGGGTGCAGACTgtgagtatct ... gtgtttgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaattggaaccgctttgtgtcaaatgtttgatgtttggtatttggtgtttgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCAATGATGAAGTCAAAAGTCATTTACAG
                          gtttgat  putative branch site (score: 5)
                      aaatgttt  TA-rich tract