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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaaatctgaatttttttccttttcatttgttgcataggtaagtgataatgttaatacacttaagtaattaatgtgatttgtttcttttgacgttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

Basic information

species Glycine max
transcript GLYMA07G38050.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 7
----ttgaaatctgaattt-ttttccttttcatttgttgcataggt--aagtgataatgttaataca----cttaagtaattaat-------------gtgatttgtttctt------ttgacgtt-gcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
     |     |||  | |  | |  ||||    ||| ||   |||  |||| || |||||  |  |    || ||| | ||  |              | ||| |||  |       |||| ||| |||||| ||||| ||||| || ||| |||| ||||||||  | ||||||||||||||||| ||||||||||| |||||||||||||||||||| ||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattatgttggtttacatcctcaagcatttttttgcttttattctgataattcgttgatgctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 7
----ttgaaatctgaattt-ttttccttttcatttgttgcataggt--aagtgataatgttaatacac-----ttaagtaattaat-------------gtgatttgtttctt------ttgacgtt-gcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
     |     |||  | |  | |  ||||    ||| ||   |||  |||| || |||||  |  ||     | ||| | ||  |              | ||| |||  |       |||| ||| |||||| ||||| ||||| || ||| |||| ||||||||  | ||||||||||||||||| ||||||||||| |||||||||||||||||||| ||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattatgttggtttacattcctcaagcatttttttgcttttattctgataattcgttgatgctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 7
---------------------------------------------ttgaaatctgaatttttttccttttcatttgttgca---taggtaagtgataatgttaatacacttaagtaat---taatgtgat--ttgtttcttt--tgacgttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
                                             |  |||| |     | ||||   |  | || | | |   |   | |||    || |    |   | |||| ||    ||| | ||      |   ||  | | | ||||||| |||||||||||||| ||| |||||||||||||  | ||||||||||||||||| |||||||| ||||||||||| ||||| |||||||| || ||||
gtatgttagcaccaccttgtcacattaattctacattgctacctatgcaaattttgtactctttctaatctaattatggtaatttgcttcagtatacatttcttcaagttcaagttatgtccaattttatcaccactgacttgattatgctgcagAATAATCTTCATGAACTTTGGTCTCTTCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAGACTTTTGATGATTGGTTCCAAATCTCAGGGGAAA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 7
---------------------ttgaaatctga-atttttttccttttcatttgttgcata---ggtaagtgataatgttaatacacttaagtaattaatgtgatttgtttct-------tttg-----acgttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
                     |||  || |    | |    ||    || |  |||  ||     | ||| |   ||||    ||  | |||  ||  | | || || ||||       ||||     || | |||||| ||||| ||||| ||||||||||| ||||| ||  |  | |||||||||||||| ||||| ||||| |||||||||||||||||||| ||||| ||||
gtaggcttctgccagtattgtttgttatatagtgtgtgcacccagaacaatgattgagtaccgattcagtaaccgtgttgtgtcatattagtttttggtttaatctgattctagtccggtttgctgctacatggcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTCCCTGAAATATTTAGCTCTGCGGAAACCTTTGATGAATGGTTTCAAATTTCTGGGGAAA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 4
---------------------------------------------ttgaaatctgaatttttttccttttcatttgttgcataggtaagtgataatgtt--aatacacttaagtaattaatgtgatttgtttcttttgacgttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
                                             | |||   ||| ||   | ||  |||| |    |  | |     |  | || ||    |  | |    |   || | ||||||| | ||    || | |||||| ||||| ||||| ||||||||||| ||||| ||  |  | |||||||||||||| ||||| || || |||||||||||||||||||| ||||| ||||
gtaggcttctcttgccactatttgtttttatataatgcgtgcacctggaacaatgatttaggtaccacttcagtaaccgtgttgtgccatatttattttttggtttaatctgatc-ctagtctgatttgctgct----acatggcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTACCTGAAATATTTAGCTCTGCGGAGACCTTTGATGAATGGTTTCAAATATCTGGGGAAA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------------------------------------------------------------------------------ttgaa-atctgaatttttttccttttcatttgttgcataggtaagtgataatgttaat------acacttaagtaat-taatgtgatttgtttcttttgacgt-tgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
                                                                                       ||| |   ||   |||     |||  | |||| |     ||  | |  |||| || |       |    |  |||   |  |||  |    || |  | |  | ||||||| ||||| |||||||| ||||||||||| || |||||| ||||||| || |||||||| || || ||||||||||||||||||||||| |||||||| |
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
ttgaaatctgaatttttttccttttcatttgttgcataggtaagtgataatgttaatacacttaagtaattaatgtgatttgtttcttttgac---gttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
 |    | |   ||  | | | ||  |  || | | ||  ||  |  |    || ||   ||| ||| | || ||| |||  |||| | ||       | ||||| ||||| |||||| | ||||| |||||||| |||||| | |||||  | |||||||| || ||||||||||| || ||||||||||| ||||||||||
-ttttttttcttttcgtgttccttagacatgcttcttac-tatcttctgtacttgatttgcttgagttaatattgt-attcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 7
----ttgaaatctgaatttttttccttttcatttgttgcataggtaagtgataatgttaatacacttaagtaattaatgtgatttgtttcttttgacgt-tgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
    || | || |  |  |  | | | ||    | |   |||   || | | ||||  || |   |  || |  | |  |  ||  | |||||||   | |||||||||||||||||||||| ||| ||||||||||||||||  |||| || ||||||| ||| ||||| ||||||||||||||||| ||||| ||||| || |
actctttatatatacacatact-cttatttgcctatccaataa--aaataaaaatg--aaaatggtgtagcatgtgacatccttgctatcttttgctatgtgcagAACAATCTTCATGAACTATGGTCTCTTCTCAACTTTCTACTGCCCGAGATATTTAATTCAGCTGAGACTTTTGATGAATGGTTCCAAATTTCTGGAGATA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 6
ttgaaatctgaatttttttccttttcatttgttgcataggtaagtgataatgttaatacacttaagtaattaatgtgatttgtttcttttgacgttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
                                       |||  | | || |||      ||||||   | ||  | |||   |    |    |   ||||||||||| || ||  | ||||||||||| ||||||||  |||| || || || || ||||||||||| || || |||||||||||||| ||||| ||||
---------------------------------------gtattttaaaaggttt-----cttaagc--tgaacctaattcactgaactgattg--acagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAA

upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
lower sequence: EFJ32950 (Selaginella moellendorffii), 3'ss of exon 6
ttgaaatctgaatttttttccttttcatttgttgcataggtaagtgataatgttaatacacttaagtaattaatgtgatttgtttcttttgacgttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
                                       |||  | | || |||      ||||||   | ||  | |||   |         |   ||||||||||| || ||  | ||||||||||| ||||||||  |||| || || || || ||||||||||| || || |||||||||||||| ||||| ||||
---------------------------------------gtattttaaaaggttt-----cttaagc--tgaacctaattcactgaaccgattg--acagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataatgttaatacacttaagtaattaatgtgatttgtttcttttgacgttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA
                                         ttttgac  putative branch site (score: 3)
                                     tttcttttg  CT-rich tract
       ttaatacacttaagta  TA-rich tract