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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttgtttatgacttacctttgcttgatgaatgaaaaagaagacactgtttaatgtgattttgttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG

Basic information

species Glycine max
transcript GLYMA19G09320.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02270.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------------------gtaatttgtttatg-acttacctttgcttgatg-aatgaaaaagaagacactgtttaatgtgattttgttaattacttttt-----attatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
                                                            ||| || | | | || ||| ||    || |   ||    | |  | | || || ||| |  || | ||  || ||||||     ||| || |||| |  ||||     || ||||| |||||||||| |||||| |||||||||||||||||||| |||||  |||  || ||||| ||||| ||| | || |||||||||
gtacttgtagaagaagtcattttctgaagttccattcattttctaaatgaatataaacaaaatgtgctcaagcacatactttctagtgttttgataccgatgttggccct-ttcaatttcgttattttgttttctttttttggaattttccatatttttagGTATCCACATACACCGGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGATGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02080.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------------------gtaatttgtttatg-acttacctttgcttgatg-aatgaaaaagaagacactgtttaatgtgattttgttaattacttttt-----attatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
                                                         ||| || | | | || |||  |    || |   ||    | |  | | || || ||| |  || | ||  || ||||||     ||| || |||| |  ||||     || ||||| |||||||||| |||||| |||||||||||||||||||| |||||  |||| || ||||| ||||| ||| | || |||||||||
gtacttgtagaagtcattttctgaagttccattcattttctaaatgaaaataaacaaaatgtgctcaagcacatactctccagtgttttgatattgatgttggccct-ttcaatttcgttgttttcttttctttttttcgaattttccatatttttagGTATCCCCATACACCGGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTCGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 1
-------------gtaatttgtttatgacttacctttgcttgatgaatgaaaa-agaagacac-tgtttaatgtgat---tttg---ttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
               | |   ||    ||||   ||   ||  | | |  ||| | || | |  || | ||  ||||   | |    |||||||  |  | ||  | || | || || |  |  || || || || ||||||| |||||||||||||||||| ||||| ||||||||  |||| |||||||| |||||  || | ||  ||||||||
gtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaatatatgatcaagttgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02040.t01 (Vitis vinifera), 3'ss of exon 3
gtaatttgtttatgacttacctttgcttgatgaatgaaaaagaagacactgtttaatgtgattttgttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG-------------------------------
                                                                                                                 | ||||||| |||||||||||||||||| ||||| ||||||||  |||| |||||||| |||||  || | ||  ||||||||                               
-----------------------------------------------------------------------------------------------------------------gtatatggacaaaagagcaagttgaagcctggaagcccattgtagatgctgttcatgctaaaggcagtatctttatttgtcagCTTTGGCATGTGGGAAGAGTTTCAAACACAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02070.t01 (Vitis vinifera), 3'ss of exon 2
gtaatttgtttatgacttacctttgcttgatgaatgaaaaagaagacactgtttaatgtgattttgttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
||||||     |  |  ||| ||| | |  |                  || |  |||| |     ||||||| ||  | ||  | |  | ||||| |  |  || || || || ||||||| |||||||||||||||||| ||||| ||||||||  |||| |||||||| |||||  || | ||  ||||||||
gtaatt---acagcaaatacttttaccttcttgt-----------gttttgatagatgtaa---gattaattatttggttttccccacctatgcagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02010.t01 (Vitis vinifera), 3'ss of exon 2
-------------gtaatttgtttatgacttacctttgcttgatgaat--gaaaaagaagacac-tgtttaatgtgat---tttg---ttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
               | |   ||    ||||   ||   ||  | | |   || || || | |  || | ||  ||||   | |    |||||||  |  | ||  | || | || || |  |  || || || || ||||||| |||||||||||||||||| ||||| ||||||||  |||| |||||||| |||||  || | ||   |||||||
gtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaaatatatgatcaaattgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTAATTGTCAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02060.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------------------------gtaatttgtttatg-acttacctttgcttgatg-aatgaaaaagaagacactgt--ttaatgtgattttgttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
                                                                  ||| || |   | || ||| ||    || |   ||    | |  | | ||||  ||  ||| ||||| ||   |  ||   ||| || |||| |  ||||      | ||||| |||||||||| |||||| ||||||||||| |||||||| |||||  |||| |||||||| ||||| ||| | || |||||||||
gtaattgtagaagaagtcattttctgaagttccattcattttctaaatgaaaaaaaaaaaatgcaaaatgtgctcgagcacatactttccagtgttttgatattgatgttggccctgtcgtttttgttattttattttatttttggaattttccatatttttagGTATCCAAATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCTTGGAAACCTATTGTAGATGCTGTTCATGCTAAAGGCGGTATCTTTTTTTGTCAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0041g02020.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------------------gtaatttgtttatg-acttacctttgcttgatg-aatgaaaaagaagacactgt--ttaatgtgattttgttaattacttttt-------attatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
                                                            ||| || |   | || ||| ||    || |   ||    | |  | | ||||  ||  |||  |||| ||   |  ||| |       ||| || |||| |  ||||     || ||||| |||||||||| |||||| |||||||||||||||||||| |||||  |||| || ||||| ||||| ||| | || |||||||||
gtaattgtagaagaagtcattttctgaagttccattccttttctaaatgaaaataaacaaaatgtgctcgagcacatactttccagtgttttgatattgatgttggccctgtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG

upper sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19996 (Selaginella moellendorffii), 3'ss of exon 2
gtaatttgtttatgacttacctttgcttgatgaatgaaaaagaagacactgtttaatgtgattttgttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
                               |   ||    | |||  || ||||||   |   | |  |    | | | |||          |||||        |||||||| || ||||   |||| ||||| || || |||||||| |||||||| || ||||||||||| |||| |||||| |||  ||| 
-------------------------------gtgagagtttggagatcctttttaatccaagcgtctgtacggttgtcttttac--------acagGTACTCTTGTACACCCGGAATCTGGACGCAAGAACAAGTAGAGGCCTGGAAACCGATTGTGAAAGCCGTTCATGCCAAGGGTGCTGTATTTTTTCTTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagacactgtttaatgtgattttgttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
                       tgttaat  putative branch site (score: 3)
          tttaatgtgattttgt  TA-rich tract