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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgagttcatctatacttacataacccaacaggaataatgcctttagtttggtggtttacacttttttcttttgcagCTGGAATTGTTATAGAGGATAAAAATTGGCCACCTTTTTGCCCCATCATTCATCACGACATTGCAAATGAAATACCTATACATCTTCAATCAATCCAGTA

Basic information

species Glycine max
transcript GLYMA13G37590.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G37590.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g42330.2 (Oryza sativa), 3'ss of exon 4
--------------gtattt-tgagttcatctatacttacataaccca--acaggaataat-gcctttagtttggtggtttacacttttttcttttgcagCTGGAATTGTTATAGAGGATAAAAATTGGCCACCTTTTTGCCCCATCATTCATCACGACATTGCAAATGAAATACCTATACATCTTCAATCAATCCAGTA
              | |||| |   | |   | ||  ||     |||   |||    |  |  |  ||  |||       | |||  || |||||||||||||| ||||| || || ||||||||||||||||| |||| |||  ||||||| ||  | ||| ||||||| |||||||| ||||| |||  ||| |||||
tgcattgtctgctagcatttgtttctactgttgtagctaagatgccctttacaaagttgcttactatttatttacctaacttcacccttctcttttgcagCTGGCATTGTCATTGAAGATAAAAATTGGCCACCCTTTTTCCCTCTCATTCACCATAATATTTCAAATGAGATACCTATTCATCTACAAAGAATGCAGTA

upper sequence: GLYMA13G37590.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G100809_T01 (Zea mays), 3'ss of exon 4
----------gtatt--ttgagttcatctatacttacataacccaacaggaataatgcctttagtttg------gtggtttacacttttttcttttgcagCTGGAATTGTTATAGAGGATAAAAATTGGCCACCTTTTTGCCCCATCATTCATCACGACATTGCAAATGAAATACCTATACATCTTCAATCAATCCAGTA
          | |||  | | | | |   |  || |   || |      |    ||   |  || |||          ||||   | || | | || ||||||| ||||| ||||| || ||||||||||| || |||| |||| |||| || || |||||| | ||||| |||||||| ||||| |||   || || ||
agaatcagttggattggtggtggtaaaacaccctgaagaaatctcggttgctatatatttcgagcttgtgcactaacctttattatcttctatctttcagCTGGCATTGTGATAGAAGAGAAAAATTGGCCTCCCTTTTTCCCCCTCATCCACCATGACATTTCTAATGAGATACCTATCCATCTACAAAGGATGCAATA

upper sequence: GLYMA13G37590.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G174730_T01 (Zea mays), 3'ss of exon 4
-------------gtattttgagttcatctatacttacataacccaacaggaataatgcctttagtttggtggtttacactt-----ttttcttttgcagCTGGAATTGTTATAGAGGATAAAAATTGGCCACCTTTTTGCCCCATCATTCATCACGACATTGCAAATGAAATACCTATACATCTTCAATCAATCCAGTA
              ||   | |    |   |  || |   ||        |    ||   ||||||||      | ||  ||      |||  ||| |||||||  |||| ||||| || ||||| ||||| || |||| |||| |||| || ||||||||| | |||||||||||||| ||||| |||   || |||||
catagagggttggataccctaaccctaaacaccctgaagaaatatgggttgttatatatttttagtttttccactaacctttgtcatcttttattttcagCTGGCGTTGTGATAGAAGAGAAAAACTGGCCTCCCTTTTTCCCCCTCATCCACCACGACATTTCCAATGAAATACCTATCCATCTACAAAGGATGCAGTA

upper sequence: GLYMA13G37590.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0059g01930.t01 (Vitis vinifera), 3'ss of exon 4
----gtattttgagttcatctatacttacataacccaacaggaataatgccttta---gtttggtggtttacac----ttttttcttttgcagCTGGAATTGTTATAGAGGATAAAAATTGGCCACCTTTTTGCCCCATCATTCATCACGACATTGCAAATGAAATACCTATACATCTTCAATCAATCCAGTA
    || | |||  |  |||  || | | || |   |    || || ||  || |     |      | || |     || ||||||| |||||||||||||| |||||||| |||||||||||||| |||| |||| | |||||||| |||||||||||||||||||| || ||||  ||     | |||||
gtttgtctgttgtttatatcattagtga-atcaattaggttgagtagtgttttcatgcagtctacaatctaaatatcattctttctttggcagCTGGAATTGTCATAGAGGAGAAAAATTGGCCACCATTTTTCCCCCTTATTCATCATGACATTGCAAATGAAATACCAATCCATCAACAGAAGTTGCAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacccaacaggaataatgcctttagtttggtggtttacacttttttcttttgcagCTGGAATTGTTATAGAGGATAAAAATTGGCCACCTTTTTGCCCCATCATTCATCACGACATTGCAAATGAAATACCTATACATCTTCAATCAATCCAGTA
 acataac  putative branch site (score: 3)
                                 tttacacttttttctt  putative PPT
                                        ttttttctttt  TA-rich tract