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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaattggtgttaacacgtattgcatgttccttagtcatgccatccttgtcatcataactcacctttgtaaaattttgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAG

Basic information

species Glycine max
transcript GLYMA06G06850.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g11730.1 (Oryza sativa), 3'ss of exon 8
gtacaattggtgttaacacgtattgcatgttccttagtcatgccatcc----ttgtcatcataactcacctttgtaaaattttgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAG
||||     |   |  || | | | |   ||  ||  || | | ||      | | |||| |  || ||||| |||  || || |  ||||||| ||||| ||||| ||||| |||||| |||| || ||||| || || || |  || ||||||||||||||||||||||| ||||| |||||||||
gtactgcaagacatgccatgcagttctaatt--ttgctcctactattgagtatgggcatcttctctaacctt-gtatgatattct--tgcagGTTCTTGGTACACCAACCCGTGAGGAAATACGTTGCATGAACCCGAACTATACAGAGTTTAGGTTTCCACAGATAAAAGCTCACCCTTGGCACAAG

upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G045330_T02 (Zea mays), 3'ss of exon 8
gtacaattggtgttaacacgtattgcatgttccttagtcatgccatccttgtcatcataactcacctttgtaaaattttgtat---tgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAG
         || ||   |  | || ||  |     ||  || | || | | |   |   ||    |||  |   || |  |||   || |||| ||||| || || ||||| |||||  |||| || ||||||||||| || | ||| || |||||||| |||||||| || || ||||||||||||
---------gtattgcaaaatgttccaaat-----agaaattctattcctct-gccgcgacgttacttattggtatgtgatatgcctgtagGTTCTTGGTACTCCAACCCGTGAGGAGATACGGTGCATGAATCCCAACTATACTGAGTTCAGGTTTCCTCAGATAAAGGCTCATCCATGGCACAAG

upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G18710.1 (Arabidopsis thaliana), 3'ss of exon 7
gtacaattggtgttaacacgtattgcatg-ttccttagtcatgccatccttgtcatcataactcacctttgtaaaatt-ttgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAG
         ||   ||    ||    ||| ||||||    ||  ||| |||    |   || ||  |  |||| | || |||||   ||||| ||||| ||||| || ||||| ||| | || |||||||||||  ||||||  || || ||||||||||||||||| ||||| || |||||||||
---------gtaagaatctttaaacgatgattccttgcaaattacattctttggctacaaaatcctcactgtatagttgttgtac-acagGTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAG

upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 3'ss of exon 8
gtacaattggtgttaacacgtattgcatgttccttagtcatgccatccttgtcatcataactcacctttgtaaaattttgt---attgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAG
         |||  |     | ||   ||||    | |||||   | || || |||||   | |  ||  |  | ||||||    | |||||| ||||| ||||| || || || ||| | |||||||||||||| | ||| | ||| ||||||||||||||||||||||||||||| |||||||||
---------gtgcaatttgatttttagtgtttga-aatcatgtagttctggtgatcatttgttaaattcttgca-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|10236817|gb|BE805705.1|BE805705
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|6482526|gb|AW201783.1|AW201783
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|15815079|gb|BI787354.1|BI787354
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|207696688|gb|GD676977.1|GD676977
EST:     AGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: AGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|193456694|gb|FK423524.1|FK423524
EST:     CGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|207772416|gb|GD742672.1|GD742672
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAAT
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAAT
EST: gi|7590646|gb|AW706394.1|AW706394
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|14990804|gb|BI316477.1|BI316477
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
EST: gi|6455159|gb|AW185842.1|AW185842
EST:     CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAG                         GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC
genomic: CATTATTCCCTGGCGAAAATGCAGTAGACCAGCTTGTACATATTATAAAGgtacaattgg ... tgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagtcatgccatccttgtcatcataactcacctttgtaaaattttgtattgcagGTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAG
                         aactcac  putative branch site (score: 2)
                                 tttgtaaaattttgta  TA-rich tract