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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgtgttcctgtaccccccatcccacatccctcaaaaaactgtcgctttgattatcgtaagttatttgctttttctttattttgacatgctagggaagtagcatgctttgtgcatgagtacaggatgacaactttgatgtttggtgcagttgacaatattcatttagtttctttgttgacacctcagGTTTACTTTCTTGCATGCCCCCAAGGAAATGCGCAGTAAAAATGTGGAAGCTTTGCGGACACTGTTGGTTCTATGTGACTCAGACATGAACTCTCTTCAA

Basic information

species Glycine max
transcript GLYMA17G04890.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os07g37750.1 (Oryza sativa), 3'ss of exon 18
gtatatgtgttcctgtaccccccatcccacatccctcaaaaaactgtcgctttgattatcgtaagttatttgctttttctttattttgacatgctagggaagta-gcatgctttgtgcatgagtacaggatgacaactttgatgtttggtgcagttgacaatattcatttagtttctttgttgacacct--cagGTTTACTTTCTTGCATGCCCCCAAGGAAATGCGCAGTAAAAATGTGGAAGCTTTGCGGACACTGTTGGTTCTATGTGACTCAGACATGAACTCTCTTCAA
                                   | |  ||| | |   ||  |||   | |  |    || || |||||             || | || |     |  | | |   | | |  | ||    || |  | |   |  |     || ||||||   ||  |||||||| || ||   |  ||||||||| || |||||||| || ||||||||||| ||||||||||| || ||||| ||||| ||  | |   ||  |||| |||| ||| |  || | |||
----------------------------------gtaagcaaattattttttctatttatggatatacactggttgttcttgggcaaacttctatatgtaaattcatttattgtctttttaattttatgaatgtaa-tgcgctaagttatatgaatg-caatatc--ttatgtttctttcttaaccttttgcagGTTTACATTTTTGCATGCTCCTAAGGAAATGCGTAGTAAAAATGTTGAGGCTTTACGGACCCTCCTTGGCTTAGCTGACACAGATATGGATGCTTTGCAA

upper sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G335287_T01 (Zea mays), 3'ss of exon 19
gtatatgtgttcctgtaccccccatcccacatccctcaaaaaactgtcgctttgattatcgtaagttatttgctttttctttattttgacatgctagggaagtagcatgctttgtgcatgagtacaggatgacaactttgatgtttggtgcagttgacaatattcatttagtttctttgttgacacctcagGTTTACTTTCTTGCATGCCCCCAAGGAAATGCGCAGTAAAAATGTGGAAGCTTTGCGGACACTGTTGGTTCTATGTGACTCAGACATGAACTCTCTTCAA
                                                            ||| |||   |    |||     | || | ||| |      | |  || ||||    ||    | | ||  | ||   |    |||       | |   ||| || ||| |                 ||||||||| || |||||||| |||||||| ||||| ||||||||||| || ||  ||  ||| ||  | | | ||  |||| | || ||| |  || | |||
------------------------------------------------------------gtaggtt---tatcctttgaacttcttcatatgatgcaactgca-tatacttttcatatatcaatatgaatataatgctacccttt-------tcgttcataatcgttttg-----------------cagGTTTACATTTTTGCATGCTCCCAAGGAGATGCGTAGTAAAAATGTCGAGGCACTGAAGACTCTTCTTGGTTTAGCTGACACTGATATGGATGCTTTACAA

upper sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 21
gtatatgtgttcctgtaccccccatcccacatccctcaaaaaactgtcgctttgattatcgtaagttatttgctttttctttattttgacatgctagggaagtagcatgctttgtgcatgagtacaggatgacaactttgatgtttggtgcagttgacaatattcatttagtttctttgttgacacctcagGTTTACTTTCTTGCATGCCCCCAAGGAAATGCGCAGTAAAAATGTGGAAGCTTTGCGGACACTGTTGGTTCTATGTGACTCAGACATGAACTCTCTTCAA
                                                                                        || |  |||   |  |  |   | | |  |  | ||  |  |      ||   |  ||  | |  || || |||   | |  | || |  |||   | | ||| |||||||||||||||||||| ||||||||||||||||||||||||||||| || || || ||| ||| ||||||||||||||| |  ||||||||||||
---------------------------------------------------------------------------------------aacttattagttcatgaagacattgtataaagtattattgc-tatttgtttatctaattacttc--ttaaccataactaatatgcttttaagttt-tatcccagATTTACTTTCTTGCATGCCCCAAAGGAAATGCGCAGTAAAAATGTGGAAGCATTACGAACTCTGCTGGCTCTATGTGACTCAGAGACCAACTCTCTTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatgtttggtgcagttgacaatattcatttagtttctttgttgacacctcagGTTTACTTTCTTGCATGCCCCCAAGGAAATGCGCAGTAAAAATGTGGAAGCTTTGCGGACACTGTTGGTTCTATGTGACTCAGACATGAACTCTCTTCAA
                                         tgttgac  putative branch site (score: 3)
                      aatattcatttagttt  TA-rich tract