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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgatttgttatgtaatatgaatttggccttgaattgaatataataggaattgttttagtgttgttggcatgttttgttatggtgtggtgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG

Basic information

species Glycine max
transcript GLYMA11G00600.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G018228_T04 (Zea mays), 3'ss of exon 2
gtattgatttgttatgtaatatgaatttggccttgaattgaatataataggaattgttttagtgttgttggcatgttttgttatggtgtggtgctttgt-agGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG
                     | |      |||  |  | |     ||  |||||| || | |  ||  |  | |        |  | | || || | | ||| |||||||| ||||||||||| || ||||||||||| |||||||| |||||||| ||  |||||||  | |||||||| ||||| ||||||||||| ||
--------------------gttagccct-cctcaaccttatgcccatttgaattgcttcatt-ctgaggatacgcccctgattattattgttctatattagGTTACATTGGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATCGTGGTGGAGCTGAATGGAAGACTGAATAAATGTGGTGTTATTAGCCCACG

upper sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 2
gtattgatttgttatgtaatatgaatttggccttgaattgaatataataggaattgttttagtgttgttggcatgttttgttatggtgtggtgctttgt-agGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG
                     | |      |||  |  | |     ||  |||||| || | |  ||  |  | ||       |  | | || || | | ||| |||||| | ||||||||||| || ||||||||||| |||||||| |||||||| ||  |||||||  | |||||||| ||||| ||||||||||| ||
--------------------gttagccct-cctcaaccttatgcccatttgaattgcttcatt-ctgaggatacgtccctgattattattgttctatattagGCTACATTAGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATCGTGGTGGAGCTGAATGGAAGACTGAATAAATGTGGTGTTATTAGCCCACG

upper sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G012117_T01 (Zea mays), 3'ss of exon 1
gtattgatttgttatgtaatatgaatttggccttgaattgaatataataggaattgttttagtgttgttggcatgttttgttatggtgtggtgctttgt-agGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG
                     | |      |||  |  | |     ||  |||||| || | |  ||  |  | ||       |  | | || || | | ||| |||||| | |||||||||||  ||||||||||||| | |||||| |||||| | ||  |||||||  |||||||||| ||||| ||||||||||| ||
--------------------gttagccct-cctcaaccttatgcccatttgaattgcttcatt-ctgaggatacgtccctgattattattgttctatattagGCTACATTAGCGAGTTCGAGTACCTTGATGACCACAGAGGTGGGAAGATCGTGATGGAGCTGAATGGCAGGCTGAATAAATGTGGTGTTATTAGCCCACG

upper sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G083497_T04 (Zea mays), 3'ss of exon 1
gtattgatttgttatgtaatatgaatttggccttgaa-ttgaatataataggaattgttttagtgttgttggcatgttttgttatggtgtggtgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG
                         || |  ||  |  | |      ||   |||||      |   |  |  | ||       | |||   |  | | |||| |||||||| ||||||||||| || ||||||||||| |||||||| || ||||| ||| |||| ||  | || || || || || || |||||||| ||
------------------------gttagttctcaatctcgtgccccatttcaattggcagcattccgaggatacgtacctgattagtgctatattat-tagGATACATTGGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATTGTGGTGGAACTGAACGGCAGACTAAACAAATGCGGTGTAATTAGCCCCCG

upper sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G177720_T01 (Zea mays), 3'ss of exon 1
gtattgatttgttatgtaatatgaatttggccttgaattgaatataataggaattgttttagtgttgttggcatgttttgttatggtgtggtgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG
          ||||  ||  |     | | ||||        | | |  |      ||     |   |   ||||     | ||  |||| || | |||||| |||||||| ||||||||||| |||||||||||| |  | || || |||||||| ||| | || ||| ||||||| ||||| || || || ||||||||
----------gttagctagcac----tcgaccttatgccctgtttcaatgactccattccgaggacatgtccatg----atcat--tgtgctgttatgtagGCTACATTGGAGAGTTCGAGTACGTTGATGACCACCGATCGGGCAAGATCGTGGTCGAACTCAACGGGAGGCTGAACAAGTGCGGCGTCATCAGCCCTCG

upper sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0019g00530.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------gtattgatttgttatgtaatatgaatttggccttgaattgaatataataggaat-tgttt-tagtgttgttggcatgttttgtt-atggtgtggtgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG
                           |||| ||   | |    |     |||    ||| ||||  | |  | |  |  ||| |  | | || ||  | | ||||  | ||  | |  |||| |  ||| |||||||| ||||| |||||||||||||| |||||| |||| || || || |||||| |||||||  | || || || ||||||||||| || || ||
gtactaatcaattcatttgaatttcagattgtttcaattttcttttcttctttacttttgcattgtttttttttgttacctgtgtacatttttattcacgtattttactgattttattttgctctacagGTTACATTGGAGAGTTTGAGTATGTTGATGATCACAGGTCTGGAAAGATTGTTGTTGAACTGAATGGAAGACTAAACAAATGTGGGGTTATCAGTCCCCG

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|16278564|gb|BI942970.1|BI942970
EST:     GCCATCCTCCAAGGTCATCATAAAATTCCTATTGGTCATGCAGAAGCACG                         GGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCG
genomic: GCCATCCTCCAAGGTCATCATAAAATTCCTATTGGTCATGCAGAAGCACGgtattgattt ... tgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCG
EST: gi|298192624|gb|HO033058.1|HO033058
EST:     GCCATCCTCCAAGGTCATCATAAAATTCCTATTGGTCATGCAGAAGCACG                         GGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCG
genomic: GCCATCCTCCAAGGTCATCATAAAATTCCTATTGGTCATGCAGAAGCACGgtattgattt ... tgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataggaattgttttagtgttgttggcatgttttgttatggtgtggtgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGGCGGCTGAATAAGTGTGGGGTTATTAGCCCTCG
     aattgtttta  TA-rich tract