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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacataaatattcagtaaaaatgctacgagtttttaattgggtacatatgctgttatacttccaaaacatggtgtttatgatgccaactgaatacttgatattggcaatggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGGTTGAATTATGCACT

Basic information

species Glycine max
transcript GLYMA06G18530.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
gtacataaatattcagtaaaaatgctacgagtttttaattgggtacatatgctgttatacttccaaaacatggtgtttatgatgccaactgaatacttgatattggcaatggttttgt--agGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGGTTGAATTATGCACT
                              || |||   | |     |     |     |||||    ||  ||| ||||| |      | |  | | ||   ||||  | ||| |||  ||||||||| ||||| || || ||||||||||||||||| |||||||||||||||||  ||||||| 
------------------------------gtatttgtcttgcctagtgcaaagc----cttccctgtcagcgtgattatggtttatgtttacgattggaa--tggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG

upper sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G179308_T03 (Zea mays), 3'ss of exon 7
gtacataaatattcagtaaaaatgctacgagtttttaattgggtacatatgctgttatacttccaaaacatggtgtttatgatgccaactgaatacttgatattggcaatggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGGTTGAATTATGCACT
                              || | || ||| || ||  ||      |  | | |   ||   || || || || ||  | |  |||     | |   |||  ||   ||||||||| ||||| || ||||||||||| |||||||| |||||||| || |||||  | ||||| 
------------------------------gtatcta-ttgtgttca-gtgaaaagcttttcctagttcagcctgatt-tggtgtcattttatgact--gcgtggatcatgtgttc--agGACTTGGATGGAGTTACCCATGTGATATCTGGAGTGTTGGTTGTATTCTTGTTGAGCTTTGCACG

upper sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G063792_T06 (Zea mays), 3'ss of exon 6
gtacataaatattcagtaaaaatgctacgagtttttaattgggtacatatgctgttatacttccaaaacatggtgtttatgatgccaactga--atacttgatattggcaatggttttgt--agGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGGTTGAATTATGCACT
                                          |||  |||  |||  || |   ||    |      |      | |  ||   ||| || ||  | |    | | ||||  ||||| ||| ||||| || ||||||||||| |||||||| |||||||| || |||||  | ||||| 
------------------------------------------gtatctatcgtgtc-tattgaaaagcttttcctagttcagctcgatttggtgatattttatgattgtgtggatcttgttcagGACATGGATGGAGTTACCCATGTGATATCTGGAGTGTTGGTTGTATTCTTGTTGAGCTTTGCACG

upper sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------gtacataaatattcagtaaaa-atgctacgagttttt--aattgggta-------catatgctg-ttatacttccaaaacatg----gtgtttatgatgcca-actgaatact-tgatattggcaatggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGGTTGAATTATGCACT
                                ||   | |  | ||||||     | |||| | | |||  |||| | |        || | | |  || || | || ||  | |    |||  |||  | ||   ||||  | |  | | ||    ||| || |||||| ||||| ||||| ||||||||||||||||||||||| || |||||  |||| || |||||||| 
gtatgccatcaaatatctgccattgtttttctgt-tgtcatgagtcagtatggtgttctaccattctttcaaattagttggccagatcacaggtttcttttaatgcccaaggaagacaagtggatatagttccttgctgatgaatacgctttttttcatgtttatgtagGGCTTGGATGGAGTTATCCATGTGATATATGGAGTGTTGGATGTATCTTGGTGGAGTTATGCACG

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|10846474|gb|BF069349.1|BF069349
EST:     GTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCG                         GACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
genomic: GTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCGgtacataaat ... ggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
EST: gi|7925599|gb|AW831625.1|AW831625
EST:     GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCG                         GACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
genomic: GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCGgtacataaat ... ggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
EST: gi|192330548|gb|FK021251.1|FK021251
EST:     GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCG                         GACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
genomic: GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCGgtacataaat ... ggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
EST: gi|10843290|gb|BF066597.1|BF066597
EST:     GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCG                         GACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGTTTGTATACTGG
genomic: GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCGgtacataaat ... ggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
EST: gi|15201058|gb|BI424670.1|BI424670
EST:     GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCG                         GACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
genomic: GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCGgtacataaat ... ggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
EST: gi|10232123|gb|BE801011.1|BE801011
EST:     GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCG                         GACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG
genomic: GACATACATTGTGTCAACACGTCATTATAGGGCACCTGAAGTTATCCTCGgtacataaat ... ggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacatggtgtttatgatgccaactgaatacttgatattggcaatggttttgtagGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGGTTGAATTATGCACT
                             acttgat  putative branch site (score: 5)
          tttatgat  TA-rich tract