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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctccaacagtcaacacattgcaattatttgttaattttcatattcagttttgaaacatattttcttacttccgtgcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG

Basic information

species Glycine max
transcript GLYMA15G00340.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 16
gt-tctccaacagtcaacacattgcaattatttgttaatttt-catattcagttttgaaacatattttcttacttccgtgcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG
|| |   |    ||    |  |||   ||  |||||| |  | || | |   || |      |   ||  | |||      ||||  | ||||| || ||||| ||||||||||| || || |||||||||||||| || ||||| |||||  |||| || ||||||
gtatgctcgcttgttggta--ttgtgcttgcttgttattcctgcaaaatgcattctcttgagtgggttaatgctt----atagGTCAGGAGGCTCTCTGCATGTGAAACTATGGGTTCAGCCACAACAATTTGCAGCGACAAGACAGGAACGCTGACTTTGAATCAG

upper sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G391042_T02 (Zea mays), 3'ss of exon 16
----gttctccaacagtcaacacattgcaattatt----tgttaattttcatattcagttttgaaacatattttcttacttccg--tgcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG
    |||| |||||  || | || |||   || ||    |  ||  |   | ||  | |  |   | | | |  ||| ||   |  |  ||||| | ||||| || ||||||||||| ||||| ||||| |||||||| |||||||| |||||||| || ||||| |||||||||
gtgtgttc-ccaactttctataccttggttttgttatgctactagctccgacatctaatgctatga-acactcacttcctatggaatatagGTGAGGAGGCTTTCTGCATGCGAAACGATGGGTTCTGCCACAACAATCTGCAGTGACAAGACTGGCACCTTGACGTTAAATCAG

upper sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G21180.1 (Arabidopsis thaliana), 3'ss of exon 15
gttctccaacagtcaacacattgcaattatttgttaattttcatattcagttttgaaacatattttcttacttccgtgcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG
  |    | |||        ||     | |   |   | ||| |  | | | |   | ||| |||    | | ||   |||||  ||||||| ||||| || ||||| |||||||| || |||||||| |||||||| || ||||||||||| || || ||||||
-gtaagaatcagaaggagtgttctcgctttagttctttcttcttggttattgtctgaccatttttctcaaatgccaaacagGTTAGAAGGCTTTCAGCTTGTGAAACCATGGGATCAGCAACAACAATCTGCAGTGACAAAACTGGAACTTTAACTTTGAATCAG

upper sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 17
-----gttctccaacagtcaacacattgc--aattatttgttaattttcatattcagttttgaaacatattttcttacttccgtgcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG
       | ||   |   ||| | | | |  ||| || | ||   |      |  ||||||  ||||   |||   |      |||||||||| ||||| ||||| || ||||||||||| ||||| ||||||||||||||||||||||||||||| || ||||| ||| ||
gtcatcatttctttcctccaaaataatccttaataatatcttgtctcattattctagttttataacaccattttggat----atgcagGTGCGTAGGCTTTCAGCCTGTGAAACTATGGGCTCTGCAACAACAATTTGCAGTGATAAGACTGGAACATTAACCTTGAATAAG

upper sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 17
lower sequence: PP1S8_288V6.1 (Physcomitrella patens), 3'ss of exon 17
--------------------------------------------------------------------------------gttctccaacagtc-aacacattgcaattatt---tgttaattttcatattcagttttgaaacatattttcttacttccgtgcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG
                                                                                 |||||   |  ||  | ||  || | ||  |   || || || || ||     | |||||   |||||  || |||  |   |||||||    || ||||| ||||| || |||||||| |||||||| || || |||||||||||||||||  | |||   ||  ||
gtatggttagacgtgacagcataaggatgaaatgagttgcggttttaggccttcagttcaaaagtggaaaacattactatattctcattctttctgaaactgtgaagttgatgtgtggtacttgtcttacgggctattgaat--tatttggtttcttttgc-tagGTGCGGCACCTATCAGCCTGCGAGACCATGGGATCCGCTACAACTATCTGTAGTGATAAGACTGGAACACTCACCACTAACAAG

upper sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ25508 (Selaginella moellendorffii), 3'ss of exon 14
gttctccaacagtcaacacattgcaattatttgttaattttcatattcagttttgaaacatattttc---ttacttccgt-gcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG
                                  ||| |  | ||     |||  ||  ||  |||    | | ||  ||  ||||| ||     || | || |||||||| ||||||||||| || || || |||||||||||||| |||||  ||||||| || |||
---------------------------------gtaagtcccctaagtgttttgtaagtatggttttgattcatttttgttacagGTCCGTCATTTGGCTGCCTGCGAAACAATGGGATCTGCAACGACTATCTGCAGTGATAAGACCGGAACCCTGACCTTGAACCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttgttaattttcatattcagttttgaaacatattttcttacttccgtgcagGTGCGAAGGCTGTCAGCATGCGAAACTATGGGATCTGCTACAACAATTTGCAGTGATAAGACTGGAACTTTGACCTTAAATCAG
                                      ttcttac  putative branch site (score: 2)
                                  tattttcttacttcc  CT-rich tract
       ttaattttcatattca  TA-rich tract