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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtaatcattggatacaaatttatatgcatggaaatgattgatgcgatcattggatatctctaagtttacccggaaagtttatgttgtggtactgacatctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT

Basic information

species Glycine max
transcript GLYMA10G30070.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 3
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtaat-cattggatacaaatttatatgcatggaaatgattgatgcgatcattggatatctctaagtttacccggaaagtttatgttgtggtactgacatctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT----
                                          |||| | |||  | |  | | || | | ||||| ||| |  |    ||| |||  ||  ||   ||     |  ||  ||| |   |   ||||||||                    || |  || ||||||||||||||||||||||||||||||||| || || ||||| ||| | ||| | |||||    ||||  |   | || ||  || |      ||||| |    
------------------------------------------tttatttattcgtctgctacctttgtttcaaatatattttta----aataatt--tggtattgctg-----ccttacattttctaagtgggtttatgt-------------------gctgtttttgcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCCGGTACTCTTATTCCATCAGATGTCTTAAGTTGGAAGGGCAACTCATTAAATTCTAATG----CAAGACTCACC

upper sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G038982_T01 (Zea mays), 3'ss of exon 3
--------gttaaggcttttacatctttgtatttttcttgtat------ttgttaatttact--aatttatg-taatcattggatacaaatttatatgca-tggaaatgattgatgcga-----tcattggatatctctaagtttacccggaaa-gtttatgttgtggtactgacatctc----ctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT----
        ||| |  | ||    | | ||||| |   |  ||       |  ||||  ||||  | |||||| |   |||  | ||  ||||| |  | | |  | |||    |||  |     |  ||   ||| | | | || |   |     || ||||||     | |    | |       | | |   |  |||||||||||||||||||| ||||||||||| ||  | ||||| ||||| ||||| |||||    || |  | | | || ||  || | |     || | |    
gtatcgatgtttaatcattgcactttgtgtatatacttcatagcataaatacttaagatacttcagtttatgctgtccatgtgctagtaattttttggtacttaagatggacaatgaaagttttttgtttactatatttcaattaatttgttgctgtctatgtttactaagtagtttttgggtgtgattttttctgtagGGAGTTTTTGGTTGATCTGATGGCTGCTCCTGGTGCTCTTATTCCAGCAGATATCTTAAGTTGGAAAGGCAATTCGTTAAATTCTAATAG----AAAACTTGGC

upper sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G044180_T02 (Zea mays), 3'ss of exon 4
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtaatcattggatacaaatttatatgcatggaaatgattgatgcgatcattggatatctctaagtttacccggaaagtttatgttgtggtactgacatctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT---
||       |||| ||  ||||  |||  |  || ||   | | ||   | ||| |  | | |    |     | |  |||        | |||  | | ||  |   ||   | |     ||| |   | |||||    || ||  |    |     | | |   |  |||||||||||||||||||| ||||||||||| ||  | ||||| ||||| ||||| |||||    || |  | | | || ||  ||   ||||  ||  |    
gtatcaatgttta-attattgtgctttgttcatacttcacagtataaatacttaagata-cgtcaagttatgctatccatgtgctagccttatt--tactatattccaattaatttgttgctactct--atgtttactaagtagttttttggtta---aatttttctgtagGGAGTTTTTGGTTGATCTGATGGCTGCTCCTGGTGCTCTTATTCCAGCAGATATCTTAAGTTGGAAAGGCAATTCGTTAAATTCT---AATCGAAAACTCGGC

upper sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G175563_T01 (Zea mays), 3'ss of exon 3
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtaatcattggatacaaatttatatgcatggaaatgattgatgcgatcattggatatctctaagtttacccggaaagtttatgttgtggtactgacatctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT---
||       |||| ||  ||||  |||  |  || ||   | | ||   | ||| |  |      | ||      |||     ||  | |  |   | | ||  |   ||   | |     ||| |   | |||||    || ||  |    |     | | |   |  |||||||||||||||||||| ||||||||||| ||  | ||||| ||||| ||||| |||||    || |  | | | || ||  ||   ||||  ||  |    
gtatcaatgttta-attattgtgctttgttcatacttcacagtataaatacttaagatacgtcaagttatg---ctatccatgtgctagtcttatttactatattccaattaatttgttgctactct--atgtttactaagtagttttttggtta---aatttttctgtagGGAGTTTTTGGTTGATCTGATGGCTGCTCCTGGTGCTCTTATTCCAGCAGATATCTTAAGTTGGAAAGGCAATTCGTTAAATTCT---AATCGAAAACTCGGC

upper sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 3
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtaatcattggatacaaatttatatgcatggaaatgattgatgcgatcattggatatctctaagtttacccggaaagt-ttatgttgtggtactgacatctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT-
                                                                     || ||||       |  ||||  |  |     |  || | | |     |  | | ||| ||    ||| ||  |||  || |   ||  |  |||| |||||||||||||||||||||||||||||  || || ||||||||||| |||||||| ||| | ||  | ||||||||| | || ||| | || ||||| || ||| 
-------------------------------------------------------------------cgcacattt-----tgtctaaatagtgaaactagttgttagttgttatatacatcatccgtaaccccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCC-AAAATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttacccggaaagtttatgttgtggtactgacatctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT
                            tactgac  putative branch site (score: 1)
                                    tctcctactctgcttt  CT-rich tract
            aaagtttat  TA-rich tract