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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttagttactacaatttgtagcaattgaattaccaaagtgacactaagaattggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTAATGGCCGATGACCAGATTCACTGGTTTTCAATTGTCAATTCCTTGATGATTGTAC

Basic information

species Glycine max
transcript GLYMA17G08130.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G08130.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g17370.1 (Oryza sativa), 3'ss of exon 5
-----------------------------------------------------gttagttagttacta--caatttgtagcaattgaattaccaaagtgacactaagaattggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGC----TGGGATACCTATCTTCTAATGGCCGATGACCAGATTCACTGGTTTTCAATTGTCAATTCCTTGATGATTGTAC
                                                       ||| |||  | |   || | || |  |  || | | | ||  |     ||  |  |     |   | |||| |  | | | |  ||| |||  |||||| | |||||||||| ||||    |||||||||||||| || ||| | |||||||| || ||||||||||| ||||| |||||| | ||||||    
gtgagatatatgtgcacttttttccgatcgttctgctctaatgaaatgatcgcagtagctagaaattgttcagtgtgcactagatggagtgctaatattttgttaccatctatgcgtcctt-ttgactattctgtcaatttgcagGAGAGTGATATCAAGTGGGCATCTCGCTGGCTGGGATACCTATCTACTGATGACGGATGACCAAATCCACTGGTTTTCCATTGTGAATTCCCTCATGATT----

upper sequence: GLYMA17G08130.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G409104_T01 (Zea mays), 3'ss of exon 6
------------------------------------------------gttagttagttactaca--atttgtagcaattgaattacca--aagtgacac----------taagaa--ttggatttagatgttgatttct-tttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTAATGGCCGATGACCAGATTCACTGGTTTTCAATTGTCAATTCCTTGATGATTGTAC
                                                 ||| |    ||  |||  | |     |  |  |  |||    |  ||  |           | ||||  |  |||  |  | ||  ||  | | | | || || ||| ||||  | | ||||||||||  |||||||| ||||| ||||| ||||| || ||||| || || |||||||| |||||||||||  ||||||| || |
gttagtttcaactatttttcatcttgaacttttttgtctatgaccaaccttaatgcactataacagaagtctccactgtaaacctacagatagatggtatgttttttccttgagaagttcagatgcattttttagttcatatgtgtgccgtgcagGAAAGTCCTATCAAGTGGGCATCACGCTGGGACACCTACCTTCTGATGGCAGACGACCAAATCCATTGGTTTTCTATTGTCAATTCACTGATGATAGTCC

upper sequence: GLYMA17G08130.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 6
gttag-ttagttact--acaatttgtagcaattgaattaccaaa------gtgacactaagaattggatttagatgttgatttctttt--ttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTAATGGCCGATGACCAGATTCACTGGTTTTCAATTGTCAATTCCTTGATGATTGTAC
|| ||   |  ||||  | |||   ||   |||     |  ||       ||   ||    |||   |||    | ||| | || | |  ||    || |||  ||||||||||| ||||| | ||| ||||||||||| ||||| ||||||||||| || |||||||||||||||||||||||||| ||||||||||| |
gtaagaccacatactttataataaataatgattttgccattaacctgtgtgtactacaggcaatgatattcctgtattgctgtcatgtgcttggtatgcagGAGAGTGATGTGAAATGGGCCTCTCGATGGGATACCTACCTTCTGATGGCCGATGATCAAATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTTC

upper sequence: GLYMA17G08130.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S24_182V6.1 (Physcomitrella patens), 3'ss of exon 6
------------gttagttag--ttactacaatttgtagcaattgaattaccaaagtgacactaagaattggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTAATGGCCGATGACCAGATTCACTGGTTTTCAATTGTCAATTCCTTGATGATTGTAC
              |||| |   ||  |   || | |  | ||  |   | | |  |  ||||     |  |    || |  || |  | |||| |  | | ||   ||||| |||||||||||||  || ||||| || ||||| || | |   ||||||||||| || |||||||||||  ||||||||||||||||||| |
tatgcgtaatgtagtagtgatctttgattttatcttttcccatgaagggatcgagct--cacttgatgtcag-cgaaggtaatgttcacgttttcatgt-gcagCTCAGTGAGGTGAAGTGGGCATCCCGGTGGGACACATATCTACTGACGCAAGATGACCAGATCCATTGGTTTTCAATCATCAATTCCTTGATGATTGTTC

upper sequence: GLYMA17G08130.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S83_105V6.1 (Physcomitrella patens), 3'ss of exon 6
---gttagttagttactacaatttgtagcaattgaattaccaaagtgacactaagaattggatttag----atgttgatttcttttttacctt-----gtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTAATGGCCGATGACCAGATTCACTGGTTTTCAATTGTCAATTCCTTGATGATTGTAC
   ||  ||| || |     |||| ||     | |||  |      |  | |   |||  | ||||     |  ||| |  | |   |   ||     | || | ||||||||||||||||||| ||| ||||| || ||| | ||   |   ||||||||||| || |||||||| ||| ||||||||||||||||||| |
agcgtatgtt-gtgatactgatttttattgtatcaatcgctcggaagg-atttcaaatccgctttacggctactttggtaacgtcaatgggttcgtgtgcagCCTAGTGATGTGAAGTGGGCATCTCGGTGGGACACGTATTTACTGTCGCAAGATGACCAGATCCATTGGTTTTCGATTATCAATTCCTTGATGATTGTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accaaagtgacactaagaattggatttagatgttgatttcttttttaccttgtagGCAAGTGATGTGAAGTGGGCATATCGCTGGGATACCTATCTTCTAATGGCCGATGACCAGATTCACTGGTTTTCAATTGTCAATTCCTTGATGATTGTAC
                              tgttgat  putative branch site (score: 4)
                                    tttcttttttaccttg  CT-rich tract
                                ttgatttctttttta  TA-rich tract