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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaagattttataatgtaaaaccttgactgtgacaattagttttctctcatagatttgcataatcccaattcaatgcggaaacgttgtacgtaccacacacagatttaacaggaatggaactttaatgcatttttctctgcattctcttcatttgatgcgcaatattcatattttggacccctttacagGAACGGGATACCTGACTGCATGCTTTGCCTTGATGGTTGGACCCGAAGGCCGTGCTATTGGTGTGGAACATATTCCTGAATTGGGTTCTTTTTCAATTGA

Basic information

species Glycine max
transcript GLYMA17G13480.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G13480.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G423027_T05 (Zea mays), 3'ss of exon 3
gtgtgaagattttataatgtaaaaccttgactgtgacaattagttttctctcatagatttgcataatcccaattcaatgcggaaacgttgtacgtaccacacacagatttaacaggaatggaactttaatgcatttttctctgcattctcttcatttgatgcgcaatattcatattttggacccctttacagGAACGGGATACCTGACTGCATGCTTTGCCTTGATGGTTGGACCCGAAGGCCGTGCTATTGGTGTGGAACATATTCCTGAATTGGGTTCTTTTTCAATTGA
                                                                             |||      ||| | |    |   |||  |   | ||||      | |   |   |||| |   |  | ||  ||    || |      | ||  |  |||       ||| |||| || |||||||| ||||| ||||||||  ||||||||||||| ||||| || ||  ||||||| |||||||| || || |||| | ||  ||| | |||
-----------------------------------------------------------------------------tgccaggcagttatcccagtc---cacgaagcaagcaggccctatatt---agatatttgttgtttaactcattttgcctgtt------tgtttctgattta---ttttttgcagGCACTGGATACCTAACTGCTTGCTTTGCACTGATGGTTGGACCAGAAGGGCGAGCAGTTGGTGTCGAACATATCCCAGAGTTGGTTGCTACTTCTACTGA

upper sequence: GLYMA17G13480.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G100315_T01 (Zea mays), 3'ss of exon 2
gtgtgaagattttataatgtaaaaccttgactgtgacaattagttttctctcatagatttgcataatcccaattcaatgcggaaacgttgtacgtacc-acacacagatttaacaggaatggaactttaatgcatttttctctgcattctcttcatttgatgcgcaatattcatattttggacccctttacagGAACGGGATACCTGACTGCATGCTTTGCCTTGATGGTTGGACCCGAAGGCCGTGCTATTGGTGTGGAACATATTCCTGAATTGGGTTCTTTTTCAATTGA
                                                            |  |  | |  || |  | | |  |  ||| | || || |    ||  |  ||   |||   |    |    ||  ||| |     |||| |  |  ||||||   | || |||   |     | | ||| ||| |  || |||||||| || || |||||| ||||||||||||| |||||||||||  | ||  | |||||  |||| ||  | | | ||| |||  ||||
------------------------------------------------------------gtctgttgctgatac--ttcagccat-ttgcaagtgcccatcagcaattacaagctgaacaaacagcttgctcaaattttt-----ttctgtctaactgatgccacaaatgcat---tcatgtcacgttatagGTAGTGGCTACCTGACAGCTTGTTTTGCCATGATGGTTGGACCAGAAGGCCGTGCAGTGGGAATTGAACACGTTCCCGAGATCGTTGCTTCTTCTGTTGA

upper sequence: GLYMA17G13480.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G48330.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgtgaagattttataatgtaaaaccttgactgtgacaattagttttctctcatagatttgcataatcccaattcaatgcggaaacgttgtacgtaccacacacagatttaacaggaatggaactttaatgcatttttctctgcattctcttcatttgatgcgcaatattcatattttggacccctttacagGAACGGGATACCTGACTGCATGCTTTGCCTTGATGGTTGGACCCGAAGGCCGTGCTATTGGTGTGGAACATATTCCTGAATTGGGTTCTTTTTCAATTGA
                                                                                                                      | |   |    |   || ||   |   || | | ||||            ||   || |        || | ||| || || ||| | ||||| ||||||||  | ||||||||| ||||||| ||||||||||||||||||||||||||||||||||   ||| |||  || |
--------------------------------------------------------------------------------------------------------------------gtttgttttactttctcttcttgaattagttttgtacattcttcttcttgcttttgaatatgatgaattttgatagGGACCGGGTACTTAACTGCTTGCTTTGCGGTTATGGTTGGAACCGAAGGGCGTGCTATTGGTGTGGAACATATTCCTGAATTGGTGGCTTCTTCTGTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctgcattctcttcatttgatgcgcaatattcatattttggacccctttacagGAACGGGATACCTGACTGCATGCTTTGCCTTGATGGTTGGACCCGAAGGCCGTGCTATTGGTGTGGAACATATTCCTGAATTGGGTTCTTTTTCAATTGA
                atttgat  putative branch site (score: 5)
                                            cccctttac  putative PPT
                           aatattcatatttt  TA-rich tract