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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaaatttgtccatttttgtgaacttattacacaacaaaatttcagtccagggtatctataatcttaaaaactttcagGATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGCTACATATCTCCTTATTTTATTACTGATCAGAAGACCCAGA

Basic information

species Glycine max
transcript GLYMA07G01190.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01190.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g46290.1 (Oryza sativa), 3'ss of exon 5
----------------------gtaagcaaatttgtccatttttgtgaacttattacacaacaaaatttcagtccagggtatctataatcttaa-aaactttcagGATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGCTACATATCTCCTTATTTTATTACTGATCAGAAGACCCAGA
                       | |  |   |  | |       | |   ||||    || |     | |  | ||| |     | || ||   ||| |  |||||||| || || || || ||| || | |||| |||| | ||||||||  |  |||||||||||||||||||||| ||| | |||||||||||||| ||||
gtgagtaccaagtgctgcttttattattagcctcatactgcagaatcattctatttggtaatacctactta-cctaggctgcaacttattttgggaaattggcagGATGGCAAGACATTAGACAATGAGCTTGAAGCGGTACAGGGAATGAAACTTTCCAGAGGCTACATATCTCCTTACTTTGTGACTGATCAGAAGACTCAGA

upper sequence: GLYMA07G01190.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G074790_T03 (Zea mays), 3'ss of exon 5
-------gtaagcaaatttgtccatttttgtgaacttattacacaacaaaatttcagtccagggtatctataatcttaaaaactttcagGATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGCTACATATCTCCTTATTTTATTACTGATCAGAAGACCCAGA
        | ||      | |    | ||  |  |||  |  | |   || || | || |     | ||      |   ||| |  |||||||| || || ||||| ||| || | ||||  ||| | ||||||||| |  ||||||| |||||||||||||| ||| | |||||||| ||||| ||||
gtgagtgttgagtgttcctttttgctgttagggtctttctgtatagtcaatttactgtacta--caacttacccttcggaaattggcagGATGGCAAAACATTGGACAATGAGCTTGAAGCAGTACAGGGAATGAAGCTGTCCAGAGGATACATATCTCCTTACTTTGTGACTGATCAAAAGACTCAGA

upper sequence: GLYMA07G01190.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G13860.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagcaaatttgtccatttttgtgaact-tattacacaacaaaatttcagtccagggtatctataatcttaaaaactttcagGATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGCTACATATCTCCTTATTTTATTACTGATCAGAAGACCCAGA
||||||  | || ||  ||||  ||   | || || |  ||   ||    |||       | | | ||  |  |||    |||||||| |||||||| |||||  || ||||||| || |||||||||||| || ||||||| ||||| |||||||||||||| || ||| ||||||||||||
gtaagcttacttttc--ttttcatgccttataatagatcacttgatggttgtctgatcgctgtgttattcttcaaatacccagGATGGTAACACTTTAGATAACGAGCTGGAAGTAGTGGAAGGAATGAAGCTAGCCAGAGGTTACATTTCTCCTTATTTTATCACGGATGAGAAGACCCAGA

upper sequence: GLYMA07G01190.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g02240.t01 (Vitis vinifera), 3'ss of exon 5
---------gtaagcaaatttgtccatttttgtgaacttattacacaacaaaatttcagtccagggtatctata---atcttaaaaactttcagGATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGCTACATATCTCCTTATTTTATTACTGATCAGAAGACCCAGA
              | || || ||   |  | |    | || |     |  ||    |||  |     | |||    |  |  ||||| | |||||||| || |||||||| | | |||| |||||||| |||||||||||| || | |||||||| ||||||||||||||| ||||||| || ||||||||||
gtgagtaacactcactaacttatcttctgatatattatgatcaataggcttaacacaagttgatatggtttatggatacttgcaaaacatccagGATGGAAATACTTTGGACAGTGAGTTAGAAGTGGTGGAAGGAATGAAGCTAGCGAGAGGCTATATATCTCCTTATTTTGTTACTGACCACAAGACCCAGA

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|208061375|gb|GD858011.1|GD858011
EST:     TAGCAAGGGCAATGGAGAAAGTTGGGAAGGAAGGGGTCATTACTGTCGTT                         GATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGA-TGAAGTTA
genomic: TAGCAAGGGCAATGGAGAAAGTTGGGAAGGAAGGGGTCATTACTGTCGTTgtaagcaaat ... aaactttcagGATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGAATGAAGTTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattacacaacaaaatttcagtccagggtatctataatcttaaaaactttcagGATGGGAACACTTTGGATAATAAGTTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGCTACATATCTCCTTATTTTATTACTGATCAGAAGACCCAGA
                                                ctttc  CT-rich tract
                              tatctataatcttaaa  TA-rich tract