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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttttacaacatttttttgtggatatcataaaggcactgactcaattttcagttctataacagtttttctatggtttcttggtttcgggatcagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG

Basic information

species Glycine max
transcript GLYMA05G01300.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G01300.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g45960.1 (Oryza sativa), 3'ss of exon 9
gttttttacaacattttt------ttgtggatatcataaaggcactgactcaattttcagttctataacagtttttctatggtttcttggtttcgggatcagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG
   | | |   ||||| |      || |   |||  || |   |   | ||| |    || |    | | |   |   ||  |||        |     ||||  |||||||| || ||||| || || |||||||| ||||| |||||||||||||| ||||| || || ||  |  |||| |||||  ||
--gtctgaagtcatttctgttcagttcttcgtattgtatataaaa-aattcagtgcgtagctaccgagctgacctgacatacttttccatacccaaa--cagGTTGATTACATTGCATGGGTTTGCGACCAGGATGCTTATGCTTGCAGTGGTCAGAAGTGCTCTGCTCAGTCTATTCTATTCATGCACAAG

upper sequence: GLYMA05G01300.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 10
-----------gttttttacaacatttttttgtgga-tatcataaaggcactgactcaattttcagttctataacagttttt---ctatggtttcttggtttcgggat--cagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG
               ||||  ||  |  ||  || | | ||  |     |    ||||  ||  |  | || | |  || ||     ||      || |||   | ||  ||||  || ||  | || |||||||||||||| |||||||||||||||||||| || || ||||| || || ||| |  |||| |||||||||
gtttcttaaatacaatttatgactctagttcatgcagtttcccatccatatattctcacattctaactgtaaatcccttgttgagtcatacccattttgttcttgaatgacagGTGGACTATGTTGCATGGGTCTGTGATCAAGATGCATATGCATGCAGTGGACAAAAGTGCTCTGCGCAGTCAATAGTATTCATGCATGAG

upper sequence: GLYMA05G01300.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S41_177V6.1 (Physcomitrella patens), 3'ss of exon 11
----gttttttacaacatttttttgtggatatcataaaggcactgactcaattttcagttctataacagtttttctatggtt----tcttggtttcgggat---cagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG
    |   |||   ||| |  |||||| ||    | | ||   ||  |  ||   ||    | ||    | |||  |||       | | || ||| | |    ||||| || ||  | |||||||| ||||| ||||| || || || |||||||| || |||||||||||||||||| |  ||||||||||||||
ttaagagatttgacacaatcatttgtgaat----tgaggg---tgggttgatagccaagagtgtactgatgttttgatgaggaaaatgtgggcttctgcaaacacagGAGGACTATGTTGCGTGGGTGTGTGACCAGGACGCTTACGCTTGCAGTGGACAAAAATGCTCAGCACAATCAATACTATTTATGCATGAG

upper sequence: GLYMA05G01300.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ08918 (Selaginella moellendorffii), 3'ss of exon 9
gttttttacaacatttttttgtggatatcataaaggcactgactcaattttcagttctataacagtttttctatggtttcttggtttcgggatcagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG
                                       |||||   || | || ||| | |     |||   ||     | |  ||  |   |||   || ||| | || ||||| || || |||||||||||||| |||||||||||||| || || ||||| ||  |  | || ||||| |||
--------------------------------------gtgactggtttctaagatcttttagctgctttggttgacgagtagacttttg---cagATTGACTACGTTGCATGGGTTTGCGACCAGGATGCATATGCGTGCAGTGGTCAGAAGTGTTCGGCACAGTCCATTCTTTTCATGCACGAG

upper sequence: GLYMA05G01300.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ29772 (Selaginella moellendorffii), 3'ss of exon 9
gttttttacaacatttttttgtggatatcataaaggcactgactcaattttcagttctataacagtttttctatggtttcttggtttcgggat-cagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG
                                       |||||   || | || ||| | |      | || |||||     ||       | |||   || ||| | || ||||| || || |||||||||||||| |||||||||||||| || || ||||| ||  |  | || ||||| |||
--------------------------------------gtgactggtttctaagatcttttag----ctgctgtggttgacgagtacacttttgcagATTGACTACGTTGCATGGGTTTGCGACCAGGATGCATATGCGTGCAGTGGTCAGAAGTGTTCGGCACAGTCCATTCTTTTCATGCACGAG

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|16995634|gb|BM085006.1|BM085006
EST:     TAGAAGATGCTGGATTTGACTGGAAAATACTGGGCCCTGATGTCCATCAG                         GAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGT
genomic: TAGAAGATGCTGGATTTGACTGGAAAATACTGGGCCCTGATGTCCATCAGgttttttaca ... tcgggatcagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGT
EST: gi|8827894|gb|BE211624.1|BE211624
EST:     TAGAAGATGCTGGATTTGACTGGAAAATACTGGGCCCTGATGTCCATCAG                         GAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGT
genomic: TAGAAGATGCTGGATTTGACTGGAAAATACTGGGCCCTGATGTCCATCAGgttttttaca ... tcgggatcagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcaattttcagttctataacagtttttctatggtttcttggtttcgggatcagGAAGATTACATAGCGTGGGTCTGTGATCAGGATGCATATGCATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG
                        tttttctat  TA-rich tract