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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattattattgatattttacgcatgttgattttaattctagacagtagcatatggattttatagtacgttacttgttgcaagttgtgaatatcccagagattaaaagtaatcttgtcttcttgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC

Basic information

species Glycine max
transcript GLYMA04G05320.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G05320.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os09g12560.2 (Oryza sativa), 3'ss of exon 8
gtacattattattgatattttacgcatgttgattttaattctagacagtagcatatggattttatagtacg-ttacttgttgcaagttgtgaatatcccagagattaaaagtaatcttgtcttcttgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC
                          | |   |    |||| |||   | || | |  | |||  | |    || | |    ||  |||||| || |    || |   || ||||      || |  |    ||| |||||||| ||||| || || ||| | |||||||| |||||||||||||||||  ||||||| ||||| |||||| |||| |||| | | || || || 
--------------------------tctcattaaccattcaaga--atggcttgttcagtttgcatttttcttccctacatcaccttgtgattaccttctag-tcctaactaat------ttatcatcaatcagCTTTGTGAGCGAGCACATCGAGACCTTGGAAGAAATCGACATGGAGTACAAGGAGCTGGCTCTAGAATCGGGCATCGAGAACTGGGGAAGGGTTCCAGCT

upper sequence: GLYMA04G05320.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G159013_T01 (Zea mays), 3'ss of exon 8
gtacattattattgatattttacgcatgttgattttaattctagacagtagcatatggattttatagtacgttacttgttgcaagttgtgaatatcccagagattaaaagtaatcttgtcttcttgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC
||| || |   ||   ||||   ||    |  |    ||    |   | |  |     || ||  | |  ||| | |  |||||    |   | | | |   || ||  |  | ||| |          | ||| |||||||||||||| || || ||  | |||||||||||||||||||||||||| |||||||| ||||| ||||||||||| ||||  || || ||||| 
gta-atcaagtttagcatttctggccatctactcgccatctctgtttgcaaaa----aatcttgcattttgttccct--tgcaataaatagttgtacta---atgaacggggaacttattcca----aacacagCTTTGTGAGTGAGCACATCGAGACATTGGAAGAAATTGACATGGAGTACAAGGAGTTGGCTCTGGAATCAGGCATCAAGAACTGGGGTCGGGTTCCTGCT

upper sequence: GLYMA04G05320.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G047095_T04 (Zea mays), 3'ss of exon 9
gtacattattattgatattttacgcatgttgattttaattctagacagtagcatatggattttatagtacgttacttgttgcaagt-tgtgaatatc-ccagagattaaaagtaatcttgtcttcttgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC
                           |   |||   ||     |   ||| || ||| ||     ||   |||| |||    | | |||   | |    |  |||  || || | |   |  |   |  | | || || ||||| ||||| ||||| || || |||||||| ||||||||||||||||| |||||||| ||||| |||||  |||| ||||  || || ||||| 
---------------------------gcaaattgcgat-----atgctagtatctggtttactctgt---ttacctgtcaagattatgttgctgttgttaatgatgtaatgtgagccatttatgacgaatac-agCTTCGTGAGCGAGCACATTGAGACACTGGAAGAAATAGACATGGAGTACAAGGAGTTGGCTCTGGAATCAGGCATTGAGAACTGGGGCCGGGTCCCTGCT

upper sequence: GLYMA04G05320.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G26030.2 (Arabidopsis thaliana), 3'ss of exon 7
gtacattattattgatattttacgcatgttgattttaattctagacagtagcatatggattttata---gtacgttacttg--ttgcaagttgtgaatatcccagagattaaaagtaatcttgtct-tcttgtgtcc--cagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC
     | |      ||||  ||  |    | |  | | |||   |  || | | |   | |||  |   || | |||   |  | |  |||| |  ||      |   ||   | |  ||||   | |||||  ||   |||||| ||||||||||| ||||| || ||||| || || ||||||||||| | |||||| |||||||| || ||  |  |||| |||| ||| ||||| || 
----gtgagagaccatataataatccctgttagctcatttccgtattgtggaagagatactttccaagcgtccattatcagattcgttagttattgatcatttcggctttcttatttttctttcatatcttggatctttcagTTTCGTGAGTGAGCACATTGAGACACTTGAGGAGATAGACATGGAGTATAGGGAATTAGCTCTTGAGTCAGGGGTAGAGAACTGGGGACGGGTACCCGCG

upper sequence: GLYMA04G05320.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0008g00800.t01 (Vitis vinifera), 3'ss of exon 8
gtacattattattgatattttacgcatgttgattttaattctagacagtagcatatggattttatagtacgttacttgttgcaagttgtgaatatcccagagattaaaagtaatcttgtcttctt-gtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC
                             ||| ||||     ||  | |  ||| || |||||||  |          ||   ||     | |||     | ||      || ||   | || ||    | |||| ||||| || || || || ||||| |||||||| |||||||||||||| ||| |  |||||||||||||||| ||| |||| ||||  || || ||||| 
-----------------------------tgaatttagg--aagcaaatcccatgtg-attttatcattttaagaaaatttttagac---agtatgtttaacatgtttgctactccaatttttttcaaattccagCTTTGTAAGCGAACACATAGAAACACTTGAAGAGATTGACATGGAGTATAAGCACCTGGCTCTTGAATCTGGAATCGAGAACTGGGGCCGAGTCCCTGCT

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|192312456|gb|FK004970.1|FK004970
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGTATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|13240126|gb|BG359443.1|BG359443
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|5677401|gb|AI938531.1|AI938531
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|209701600|gb|BW655861.1|BW655861
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|209715223|gb|BW668551.1|BW668551
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|254328718|gb|GR833090.1|GR833090
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|120491407|gb|EH219574.1|EH219574
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAANCCCTTGA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAA-CCCTTGA
EST: gi|192320187|gb|FK014215.1|FK014215
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|13563037|gb|BG551257.1|BG551257
EST:     GTTGAGCTTGGCC-AAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|120491614|gb|EH219781.1|EH219781
EST:     -TGAGC-TGGCCCAAAAAGGTGTGAAGAGTCTNTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: TTGAGCTTGG-CCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|23064166|gb|BU578939.1|BU578939
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACC
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACC
EST: gi|13562877|gb|BG551097.1|BG551097
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
EST: gi|192312457|gb|FK004971.1|FK004971
EST:     GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAG                         TTTTGTGAGTGAGTATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA
genomic: GTTGAGCTTGGCCAAAAAGGTGTGAAGAGTCTTTTAGCTGTTCCAGTGAGgtacattatt ... tgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaagttgtgaatatcccagagattaaaagtaatcttgtcttcttgtgtcccagTTTTGTGAGTGAGCATATTGAAACCCTTGAAGAAATTGACATGGAGTACAAGGAATTGGCTCTTGAATCTGGCATCAAGAATTGGGCACGTGTACCTGCC
                                  tcttgtcttcttgt  CT-rich tract
                       attaaaagtaatctt  TA-rich tract