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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcatattgagttttgcttcatttatgtggaatttgtatatataaggtcagggttacatattttattttgatgcaatgatggttgttacaaaattcacagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTTTTATTCTGATGATCCAATGTTAACATGCAGGAAG

Basic information

species Glycine max
transcript GLYMA10G04410.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G04410.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 3'ss of exon 6
agcatattgagttttgcttcatttatgtggaatttgtatatataaggtcagggttacatattttattttgatgcaatgatggttgttacaaaattcacagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTTTTATTCTGATGATCCAATGTTAACATGCAGGAAG
            |  || || ||||  |  |  |    |      |  |     |    | |||    | | | |||  ||  |  |   || |    ||||||||||||||||| || ||||| |||||||| ||||| ||||| || || ||||||||||| || |||  ||| ||||| |||
-----------gtaagcatcgtttacataaatatctcgtgccatggacc-----tcttgagtttgcagtaaagaaat--tgaataatttcaactatctagGTGGTCACTTGGAGCAATCATGTATGAAATGCTAGTGGGCTATCCCCCATTCTATTCTGATGAGCCTATGACAACTTGCAGAAAG

upper sequence: GLYMA10G04410.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 6
agcatattgagttttgcttcatttatgtggaatttgtatatataaggtcagggttacatattttatttt-gatgcaatgatggttgttacaaaattcacagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTTTTATTCTGATGATCCAATGTTAACATGCAGGAAG
||    |||    |         |   |  ||||  |||  | |     |    | | || ||| ||   ||   ||| ||| || ||  |   | ||||||||||||||||| ||||| ||||| |||||||| ||||| ||||| |||||||||||||||||||| |||| |||||| ||||||
agatccttggaactaaaacagagtgatttaaattattatggaaagtcagaacactccttaattttttccagaccaaattatgattcttttatt-tccacagGTGGTCACTTGGTGCTATCATGTATGAAATGCTTGTGGGGTATCCACCTTTTTATTCTGATGATCCCATGTCAACATGTAGGAAG

upper sequence: GLYMA10G04410.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 3'ss of exon 6
agcatattgagttttgcttcatttatgtggaatttgtatatataaggtcagggttacatattttattttgatgcaatgatggttgttacaaaattc----acagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTTTTATTCTGATGATCCAATGTTAACATGCAGGAAG
|     | |||   | ||| ||    |   |  |||       |||  | |  |   |  ||||  ||     ||     | |    | |  |||      |||||||||||| ||||| || |||||||| |||||||| || || || ||||| || |||||||| || |||  ||| ||  | |||
aattactcgaga--tactttatactcgactaggttgggagg--aagccccgcatgttaggtttttgttcagcccagaacagttcaacatatgattttcctgcagGTGGTCACTAGGAGCAATCATGTACGAGATGCTGGTTGGTTACCCCCCTTTCTACTCTGATGAACCCATGACAACTTGTCGCAAG

upper sequence: GLYMA10G04410.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S86_100V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------agcatattgagttttgcttcatttatgtggaatttgt-atatataaggtcagggttacatattttattttg-atgcaatgatggttgttacaaaattc---acagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTTTTATTCTGATGATCCAATGTTAACATGCAGGAAG
                  |  ||| | || ||   |||||       |  | || ||   | | ||  | | | | ||  | |||  | |||  | | |      ||  ||    ||||||||||||||||||| || |||||||| ||||| || || || ||||| ||||| ||||| || || |||  ||| ||  | |||
gtatgtgacaagtcgttctcctgaatctttctctttttatccttggctcatgatgtacttgcttagcttgataaagttcttgttgtgttcaaaaaggttgaacgtaagttttcctacagGTGGTCACTTGGAGCAATCATGTACGAGATGCTAGTTGGCTACCCTCCATTTTACTCTGACGAACCTATGACAACTTGTCGCAAG

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|9986562|gb|BE660670.1|BE660670
EST:     ATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTG                         GTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTNCTTT
genomic: ATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagtttta ... aaattcacagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcagggttacatattttattttgatgcaatgatggttgttacaaaattcacagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTTTTATTCTGATGATCCAATGTTAACATGCAGGAAG
                    ttttgat  putative branch site (score: 4)
        ttacatattttatttt  TA-rich tract