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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaatgttgtactaatgatattaaattgaataatgcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA

Basic information

species Glycine max
transcript GLYMA05G35130.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os06g36080.1 (Oryza sativa), 3'ss of exon 11
----------------gttttaagattaatttttttaacacagtttctcccttttttagttgt----------tatgttaaccttctaatgttg---tactaatgatattaaattgaataat----------gcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
                   |||||   ||||| ||   |     |  |   | |  || ||||          ||    ||  ||  | || |    |||   | || || | ||| ||| |            ||  ||||||| |   || |||||| |  | || ||||||||||| ||||| |||||||| ||||| ||||| ||||| |||||||| ||||||||||| ||
gtaagaataaaagcgacacttaagtgaaatttgttgtgctttagtgttgattatactaattgtccagagaaagtaccgaaattttgcagtgctaacatacagtttatgttcatttgtatattcattttctggctagATGAGGTATTCAAGGAAATTCAACCACTAATTAGATCAGTTCTTGATGGCTATAATGTTTGTATTTTTGCGTATGGTCAAACTGGATCAGGGAAAACATA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaatgttgtactaatgatattaaattgaataatgcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
         |  |||||||||  |  |      |   | | || |  | |||   |     |||  | || || | || ||   |  | |  | |||| ||||| | ||| ||||||||| |  | ||  |||||||||| ||||| |  ||||| ||||| ||||||||||| |||||||||||||| ||||||||
--------gtatatttttttacaatggaaat--ctggtataagcttatctgtgtgcaaataaat--tctaatacttatctt---tcaatt--tacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g54080.1 (Oryza sativa), 3'ss of exon 13
gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaatg--ttgtactaatgatattaaattgaataat--gcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
       |  ||  ||  | |   |||    |   ||    |      |  ||  | | |   ||     | || |  |  ||  |||  ||||    |||| || || | ||| || || ||| | || || ||||||||||| ||||| |  ||||| || || ||||| ||||| |||||||||||||| ||||| ||
-------gtatatattagtaagagcaggaatttaattaaagaaaaaaaaatttggcatacagttgaacattgctcacaagcttttatttgataactcacagCTGAAGTTTTCTCCGATATCCAACCTTTGATTAGATCAGTTCTTGATGGATTCAATGTTTGCATTTTTGCATATGGACAAACTGGTTCAGGAAAAACATA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G323622_T01 (Zea mays), 3'ss of exon 4
gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaatgttgtactaatgatattaaattgaataat--gcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
   |  |  |||| | | ||||    |    ||     ||||   ||| | | |    |  ||| ||  ||| |  |  ||   |||  ||||   |||  || |||| |||||| || ||  |  | || ||||||||||| ||||||| ||||||||| || ||||| ||||| |||||||||||||| || |||||
--gtatatcttaagtatgttaatggtgcaa-tctaaaatttaaaagttgtataa----ttgaatatt--actcaccaagttttcttgcctaatttccagTTGAAGTATTCTCTGATATCCAGCCTCTGATCAGATCAGTTCTTGATGGGTTTAATGTGTGCATTTTTGCCTATGGTCAAACTGGTTCAGGAAAGACTTA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G124883_T01 (Zea mays), 3'ss of exon 4
gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaatgttg-----tactaatgatattaaattgaataat--gcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
    ||    | |  | || |  |  |||  |     | | |  |   || | ||  || ||   |||     | || |  |  ||   ||   ||||   |||| ||||||| |||||| || ||| |  | || ||||||||||| ||||||| ||||||||| || ||||| ||||| |||||||| || || || |||||
---gtatatcttaactcttaagtat-gttattaatggtctaatctaaaatttaaaagttgtatcattggatattgctcacaaagttttcttacctaatttccagCTGAGGTATTCTCTGATATCCAACCTCTGATCAGATCAGTTCTTGATGGGTTTAATGTGTGCATTTTTGCCTATGGTCAAACTGGATCCGGAAAGACTTA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G062034_T01 (Zea mays), 3'ss of exon 4
---------------------------gttttaagattaatttttttaacacagtttctcccttttttagttgt--tatgttaaccttctaatgttgtactaatgatattaaattgaataatgcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
                            | ||  | ||||| | |||||      |     ||  |  | | |   |  ||||  | | |  |||  ||    |  |  |   |||     |  ||    ||| | |   || ||||   |  | || ||||||||||| ||||| || ||||| || || ||||| ||||| |||||||| ||||| |||||  |
gtgctaatgacattgaaataaaaatatatcttttgtttaatctatttaattgctataagtactcataaaatagcactgagttatacattttttgtcatatctttctttcttgtttgt----tatagATATGGTTTTCAACGATATTCGGCCACTAATTAGATCAGTTCTTGATGGCTACAATGTTTGCATTTTTGCATATGGTCAAACTGGATCAGGAAAAACACA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G73860.1 (Arabidopsis thaliana), 3'ss of exon 12
------------------------gttttaaga--ttaatttttttaacacagtttctc----ccttttttagttgttatgttaaccttc------taatgttgtactaatgatattaaatt--------------gaataatgcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
                        ||| ||     |||   |||| |   | ||||        || |   ||   | ||| ||    ||      |||| || || | ||   |  || ||              || |  |||||| || || |  || |||||   | |  |  | || ||||| || |||||||| ||||| ||||||||||| |||||||| || || ||||||||||||||
gtgtgttcatctgttaccggttctgttatatatccttatgcttttcagttctgttttgtgtgatctatgcgagaattcatggtacatctcgagaaataatattatattgatatcaccaagttcatttgatattttggattcttgcagCTGACGTCTTTTCAGACATAAGACCGCTGGTTAGGTCAGTACTTGATGGGTACAATGTTTGTATATTTGCATATGGCCAGACAGGATCAGGGAAAACTTA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
--------------gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaa------tgttgtactaatgatattaaattgaataat----gcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
              |  | | || |  ||| || || | | ||| |      ||    |||| |    ||     ||      |  | |||| |||  |||  ||    ||||    ||||| |||||||  || || ||  || |  ||||  |||||||||| || ||||| ||||| ||||| ||||| ||||| || || || ||||||||||||||
gtgttcttttgtttgcctgaggaatt-tttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaaaaattaatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA

upper sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
--gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaatgttgtactaatgatattaaattgaataatgc----agCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
   ||| |   |||  |||| |||    | | ||    |   |   | | | |  | | || ||||| |  ||| ||  |||    ||| | ||||     ||| ||||| |  ||||||| |||| ||||  || |||| ||||| ||||| |||||||| ||||||||||||||||| ||||||||||| || || || ||
gtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattat--gcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgttatgttaaccttctaatgttgtactaatgatattaaattgaataatgcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
                          tactaat  putative branch site (score: 1)
                       ttgtactaatgatatt  TA-rich tract