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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaattggtgttgatatgtattgtatgttccttagtcatgccatccttgtcattataaatcacctttgtaaaattttgtattgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCTCAGATAAAAGCACACCCATGGCACAAG

Basic information

species Glycine max
transcript GLYMA04G06760.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G06760.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g11730.1 (Oryza sativa), 3'ss of exon 8
gtacaattggtgttgatatgta-ttgtatgttccttagtcatgccatccttgtcattataaatcacctttgtaaaattttgtattgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCTCAGATAAAAGCACACCCATGGCACAAG
||||     |   ||  ||| | || ||  ||   |  |  |        ||    | |     | | |||||  || || |  ||||||| ||||| || || || || |||||| |||| || ||||| || || || |  || ||||||||||| ||||||||||| ||||| |||||||||
gtactgcaagacatgccatgcagttctaattttgctcctactattgagtatgggcatcttctctaaccttgtatgatattct--tgcagGTTCTTGGTACACCAACCCGTGAGGAAATACGTTGCATGAACCCGAACTATACAGAGTTTAGGTTTCCACAGATAAAAGCTCACCCTTGGCACAAG

upper sequence: GLYMA04G06760.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G045330_T02 (Zea mays), 3'ss of exon 8
gtacaattggtgttgatatgtattgtatgttccttagtcatgccatccttgtcattataaatcacct-ttgtaaaattttgtat-tgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCTCAGATAAAAGCACACCCATGGCACAAG
         || |||  |  | ||  |  |     ||  || | || | | |      |  | || | |||  |  |  | |   || |||| ||||| || || || || |||||  |||| || ||||||||||| || | ||| || ||||||||||||||||| || || ||||||||||||
---------gtattgcaaaatgttccaaat-----agaaattctattcctctgccgcgacgttacttattggtatgtgatatgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGGTGCATGAATCCCAACTATACTGAGTTCAGGTTTCCTCAGATAAAGGCTCATCCATGGCACAAG

upper sequence: GLYMA04G06760.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G18710.1 (Arabidopsis thaliana), 3'ss of exon 7
gtacaattggtgttgatatgtattgtatg-ttccttagtcatgccatccttgtcattataaatcacctttgtaaaatt-ttgtattgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCTCAGATAAAAGCACACCCATGGCACAAG
         ||    || | ||    ||| ||||||    ||  ||| |||    |   |||||  |  |||| | || |||||   ||||| ||||| || || |||||||| ||| | || |||||||||||  ||||||  || || |||||||| |||||||| ||||| || |||||||||
---------gtaagaatctttaaacgatgattccttgcaaattacattctttggctacaaaatcctcactgtatagttgttgtac-acagGTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAG

upper sequence: GLYMA04G06760.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 3'ss of exon 8
gtacaattggtgttgatatgtattgtatgttccttagtcatgccatccttgtcattataaatcacctttgtaaaattttgt---attgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCTCAGATAAAAGCACACCCATGGCACAAG
|| |||||     |||| | || ||| ||      | |||||   | || || || ||   | |  ||  |  | ||||||    | |||||| ||||| || || || || || ||| | |||||||||||||| | ||| | ||| ||||||||||| ||||||||||||||||| |||||||||
gtgcaatt-----tgatttttagtgtttg-----aaatcatgtagttctggtgatcatttgttaaattcttgca-ttttgtctggtggcagGTTCTTGGTACACCAACGCGGGAAGAAATTCGCTGTATGAATCCGAGTTATACTGATTTTAGGTTTCCACAGATAAAAGCACACCCTTGGCACAAG

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|26048883|gb|CA785336.1|CA785336
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACGCCCACTCGAAAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|13252463|gb|BG363374.1|BG363374
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|193656042|gb|FK606672.1|FK606672
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagtcatgccatccttgtcattataaatcacctttgtaaaattttgtattgcagGTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCTCAGATAAAAGCACACCCATGGCACAAG
                                 tttgtaaaattttgta  TA-rich tract