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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgtttcttgcttttataactgttcaaaagcaattaccctatatctgactgaatgatttttactacaccctttcttcctgtttcagATATCAGGTAAAGCCTTCCAAATGGCTTTCCGTGATAGGAAAATACCATTTAACATTCATGGTGTGGCTTTTTACAGAAAAAAG

Basic information

species Glycine max
transcript GLYMA20G34060.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G34060.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os07g30980.1 (Oryza sativa), 3'ss of exon 13
gtgatgtttcttgcttttataactgttcaaaagcaattacc-ctatatctgactgaatgatttttactacaccctttctt-cctgt-ttcagATATCAGGTAAAGCCTTCCAAATGGCTTTCCGTGATAGGAAAATACCATTTAACATTCATGGTGTGGCTTTTTACAGAAAAAAG
               || | || | |||     || |||   ||  | |  | |   || || |   ||    ||   || |||||   |||||  | || ||||| |||||   | | |||||  | || ||||| || ||||| ||||||||||||||||| ||||| ||||||
--------------gttgagaaatcttc-----cacttattgctgaaccatattttttggttgtgtttatggtctaagttacctgtacacagATCACTGGCAAAGCATTCCAGGCGTCATTCCGCAACAGAAAAATTCCTTTTAATATTCATGGTGTGGCTTTCTACAGGAAAAAG

upper sequence: GLYMA20G34060.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G121427_T01 (Zea mays), 3'ss of exon 9
gtgatgtttcttgcttttataactgttcaaaagcaattac-cctatatctgactgaatgatttttactacaccctttcttcctgtttcagATATCAGGTAAAGCCTTCCAAATGGCTTTCCGTGATAGGAAAATACCATTTAACATTCATGGTGTGGCTTTTTACAGAAAAAAG
                        ||| ||||    |||  | |  |   |      | ||  || | ||    |||  || ||   |||||| | || ||||| |||||| |  | |||||  | |||||||| || ||||||||||||||||||||||| ||||| ||||||
------------------------gttgaaaaaacgttatgctttcaaaaggtgtctttatgcttgcgacctaattttctcttgca-cagATAACTGGCAAAGCTTTCCAAGTCTCCTTCCGCAACAGGAAAATTCCCTTTAACATTCATGGTGTGGCTTTCTACAGGAAAAAG

upper sequence: GLYMA20G34060.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G25120.1 (Arabidopsis thaliana), 3'ss of exon 11
----gtgatgtttcttgcttttataac----tgttcaaaagcaattaccctatatctgactgaatgatttttactacaccctttct-tcctgtt--tcagATATCAGGTAAAGCCTTCCAAATGGCTTTCCGTGATAGGAAAATACCATTTAACATTCATGGTGTGGCTTTTTACAGAAAAAAG
    ||  | ||  || | || || ||    ||||  || |     |   |  |  |   |   |   | ||  || ||| |   | | ||| |  |||| | ||||||||||  || ||||  || |||||  | || ||||||||||||||| |||||||||| ||||| ||||| ||||||
gtcagtccttttcttttccttgatgacatgctgttagaatgtttaaaattttaacatatttacttatgtgttggtaaaccatgaatgtactgatattcagGTGTCAGGTAAAGTGTTTCAAAATGCATTCCGCCAGAGAAAAATACCATTTAACGTTCATGGTGTTGCTTTCTACAGGAAAAAG

upper sequence: GLYMA20G34060.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv16s0013g00300.t01 (Vitis vinifera), 3'ss of exon 10
-----gtgat--gtttcttgcttttataactgttcaaaagcaattaccctatatctgactgaatgatttttac--tacaccctt---tcttcctgtttcagATATCAGGTAAAGCCTTCCAAATGGCTTTCCGTGATAGGAAAATACCATTTAACATTCATGGTGTGGCTTTTTACAGAAAAAAG
     |  ||  || || |  | ||| |||      |||| | ||    |  |      | ||  |||  ||   | ||  ||      ||| ||   ||| |||| || ||||  |||||||  || || ||||||||||| ||||| |||||||||||||||||||| || ||||| ||||||
gtcaagctatctgtatcataatcttaaaac-acatgaaagtacttgta-tgaacacacataaactattggtatggtgcatgctgaagctttcatgccacagGTATCTGGAAAAGTATTCCAAACAGCCTTTCGTGATAGGAAGATACCGTTTAACATTCATGGTGTGGCCTTCTACAGGAAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattaccctatatctgactgaatgatttttactacaccctttcttcctgtttcagATATCAGGTAAAGCCTTCCAAATGGCTTTCCGTGATAGGAAAATACCATTTAACATTCATGGTGTGGCTTTTTACAGAAAAAAG
           atctgac  putative branch site (score: 3)
                         tttttactacaccctt  putative PPT
                    aatgatttttacta  TA-rich tract