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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtacatatttcaatgttcttcaagtgcatttatccctaattgtgggatcattcattattggaaaatttggaatactgaaaaaagtttgctacttacagGAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTGTGCCAGCAAATGGAGTGTCTGTATTACCAGACTCATTGCCATATACAGA

Basic information

species Glycine max
transcript GLYMA05G33140.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g01760.1 (Oryza sativa), 3'ss of exon 4
-tagtacatatttcaatgttcttcaagtgcatttatccctaattgtgggatcattcattattggaaaatttggaatactgaaaaaagtttgc-tacttacagGAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTGTGCCAGCAAATGGAGTGTCTGTATTACCAGACTCATTGCCATATACAGA
 || |    | |  |    || |||  || || | |   ||||  |     ||   || | ||      || |  ||| | |     |||    | || ||||||| ||||  | ||||||||||||||| |||||||| ||||| |||||||||||||| || | | |  | ||  | ||  |||| |||||||| |||||
gtaatcttaaatatacaactcctcacatg-atatgtgggtaatgata----caggtataactgtgc--ctttgcttacagcattctttttatgcatttccagGAAAGCCAGTGTACATGTATAGTATGGGTGGGCTTGCAGAATATTGCGTTGTGCCAGCCAACGCACTAGCAGTTCTTCCCAACTCTTTGCCATACACAGA

upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G024303_T01 (Zea mays), 3'ss of exon 4
---------------tagtacatatt-tcaatgttcttcaagtgcatt----tatccctaattgtgggatcattcattattggaaaatttggaatactgaaaaaagtttgctacttacagGAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTGTGCCAGCAAATGGAGTGTCTGTATTACCAGACTCATTGCCATATACAGA
                  | || ||  |  ||  || |||    ||      |||   |  |   | || ||  ||   |   |    ||  | ||     |||| | | | |  | |||| ||||| |  | |||||||||||||||||||||||| || || || ||||| ||||| ||||   |  | ||  | || |||||| ||||||| |||||
gtaacctgaggaaacagatccacatcatgcatcatcatcagtaacaccacagtattttttttaccgagaacac-cacagtataattgcttcaagtaacctgaaaattct-ccatctgcagGGAAACCGGTGTACATGTATAGTATGGGAGGGCTTGCAGAGTATTGTGTTGTCCCAGCCAATGCGCTAGCAGTTCTCCCTGACTCACTGCCATACACAGA

upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g03150.t01 (Vitis vinifera), 3'ss of exon 4
----tagtac-atatttcaatgttcttcaagtgcatttatccctaattgtgggatcattcattattggaaaatttggaatactgaaaaaagt--ttgctacttacagGAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTGTGCCAGCAAATGGAGTGTCTGTATTACCAGACTCATTGCCATATACAGA
    |  ||| | | ||  || | | |||    |||| ||   | |  ||  |   | |   | |||||| ||  ||  | |||||  | ||  |   |  ||  ||| ||||||| ||||||||| |||||||| || |||||||||||||| |||||||| ||  ||||| |  |    ||||||||||||||||||||||| ||
tttatcctactaaagttttatatccctca--ctcattgata--tgaccgtctgcctaat-gctcttggaatat--gggttgctgaagtatgtgctatttttttgtagGGAAACCAGTATTCATGTACAGTATGGGTGGCCTTGCTGAATACTGTGTTGTGCCTGCCCATGGATTAACCAACTTACCAGACTCATTGCCATATACTGA

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|14258428|gb|BG881336.1|BG881336
EST:     AAAAGGAACCCTCTATGATGGTGAAACTCGACTCTTTTTTCGAAACAGTG                         GAAAACCAGCATACATGTATAGTATGGGAGGGCTTGCTGAATACTGTGTTG
genomic: AAAAGGAACCCTCTATGATGGTGAAACTCGACTTTTTTTTCGAAACAGTGgttagtatga ... ctacttacagGAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTG
EST: gi|151395988|gb|EV265865.1|EV265865
EST:     AAAAGGAACCCTCTATGATGGTGAAACTCGACNNNNNNNNCGAAACAGTG                         GAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTG
genomic: AAAAGGAACCCTCTATGATGGTGAAACTCGACTTTTTTTTCGAAACAGTGgttagtatga ... ctacttacagGAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggatcattcattattggaaaatttggaatactgaaaaaagtttgctacttacagGAAAACCAGCATTCATGTATAGTATGGGAGGGCTTGCTGAATACTGCGTTGTGCCAGCAAATGGAGTGTCTGTATTACCAGACTCATTGCCATATACAGA
          attattggaaaattt  TA-rich tract