Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgctattagaattcttcttttctcttctcgatcccttcactggtccacttttcctttgtttttgtttttgtctgataattttcaaaaccctaatttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG

Basic information

species Glycine max
transcript GLYMA14G08940.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G08940.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0001g10820.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------gtacgctattagaattcttcttttctcttctcgatcccttcactggtccacttttcctttgtttttg----tttttgtctgataattttcaaaaccctaatttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG
                              | |  | ||||   |  | | |  | || |   || | |||||     ||  |   |  | ||||     || || |||  | ||||    |     |||       |||| |||||||| || ||||||||||| |||||||||||| |||| |||||||| ||||||||||| ||||| || || |||||||| |||||||| |||||
gtaacatcttgacgccaagacaagttttatttcaattttagggctgctttgtgatttttttattcgcatcacttccaaaccctaattagggtttttcaatttgttttcttttgatttggggattgggaata-----atagGGAGAGCTGGAGTTCCCATGGAAGTCATGGGTCTGATGCTGGGAGAGTTCGTTGATGAGTACACAGTTCGTGTAGTAGATGTGTTCGCGATGCCGCAGAG

upper sequence: GLYMA14G08940.1 (Glycine max), 3'ss of exon 1
lower sequence: EDP09161 (Chlamydomonas reinhardtii), 3'ss of exon 2
-------------------------------------------------------------------------------gtacgctattagaattcttcttttctcttctcgatccc-ttcactggtccacttttcctttgtttttgttt--ttgtctgataattttcaaaaccc-taatttctgtg-tagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG
                                                                               |  |     |   |  |    |    ||||   | ||   |  || |    |  | |    |    | ||   |  ||          |    |||  ||  | ||   ||||  | || || || |||||||| || ||||| || |||||||| ||||| ||||| || ||||| || || || ||||| |||||||||||||| |||  
gtaaggcgccgtgtttgcttgggtcctctgatagtagtgatgatgctacatcctggaggccgaccgcgagcgcttgaaggccctgcgctgcgaccccgtgtccagcttcggcacccagcttgcttgcaacccgtgcaccagcagctcttcaatcatccacccgcccactctgcccgcaacctttgcaatagGCCGCGCCGGTGTGCCCATGGAGGTCATGGGCCTCATGTTGGGCGAGTTTGTGGACGACTACACGGTGCGGGTGGTGGACGTGTTTGCGATGCCGCAGTC

upper sequence: GLYMA14G08940.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S181_105V6.1 (Physcomitrella patens), 3'ss of exon 2
-gtacgctattagaattcttcttttctcttctcgatcccttcactggtccacttttcctttgtttttgtttttgtctgataattttcaaaaccctaatttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG
  |||  |  |     | ||||| | | | || ||   ||    ||   ||   || |  |  | |  ||||   |||      ||   |      |  | | || ||| |||||||| ||||||||||| |||||||| |||||| | | |||||| || ||||| ||||| ||| | |||||| ||||||| || |||||||| ||
tttaccttcgttttcatgttcttatttgtcctggaggtctctcttg---catgattacagtagtataattttaacctgg-----tttcgattttggacatatctgcagGTAGAGCTGGAGTACCCATGGAGGTGATGGGGCTGATGCTTGTGGAGTTTGTTGATGAATACACAGTTTGTGTTGTGAATGTGTTCGCTATGCCTCAAAG

upper sequence: GLYMA14G08940.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S146_35V6.1 (Physcomitrella patens), 3'ss of exon 1
gtacgctattagaattcttcttttctcttctcgatcccttcactggtccacttttcctttgtttttgtttttgtctgataattttcaaaaccctaatttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG
 |    | | |   ||   || |   |  || ||| |  |  |   | |    ||     |   ||| |||   |||      ||  |  ||   |  |  ||| ||| ||||| || || || |||||||||||||| |||||| | |||||||| ||||| |||||||| ||||| || || ||||| ||||| |||||||||||
-tgttttttcacg-tttggctatgtacacctagatgcaatatccctttcgtgcttatcaggaggttgatttgcactgg-----tttcatgcctggacgttcgtgcagGTAGAGCGGGAGTTCCTATGGAAGTGATGGGACTGATGCTCGGGGAGTTTGTGGACGAGTACACTGTTCGTGTCGTAGATGTATTTGCTATGCCTCAGAG

upper sequence: GLYMA14G08940.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S46_324V6.1 (Physcomitrella patens), 3'ss of exon 1
gtacgctattagaattcttcttttctcttctcgatcccttcactggtccacttttcctttgtttttgtttttgtctgataattttcaaaaccctaatttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG
       |||||  |||    | | |  |||  |    || | ||     || ||| || |      ||    ||  ||   |  ||||      |     ||| ||| |||||||| || || ||||| |||||||| |||||| | |||||||||||||| |||||||| ||||| ||||||||||| ||||| ||||| |||||
----tacattagggttcgg--tctattgtctaaagaatttaaatgacttgctcttcgttgggagggcttggattcaaattggtgacaaa-tttggacgatcgtgcagGTAGAGCTGGAGTGCCTATGGAGGTGATGGGGCTGATGCTTGGGGAGTTCGTGGACGAGTACACTGTTCGTGTTGTGGATGTATTTGCTATGCCACAGAG

upper sequence: GLYMA14G08940.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ37436 (Selaginella moellendorffii), 3'ss of exon 1
gtacgctattagaattcttcttttctcttctcgatcccttcactggtccacttttcctttgtttt-tgtttttgtctgataattttcaaaaccctaatttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG
                                             ||             | |     |||| ||   | |  |||     | ||  ||||   | ||| |||||||| || ||||||||||| ||||| |||||| | ||||| || ||||| |||||||| |||||||| ||||| || |||||||||||||||||
---------------------------------------------gtaaggagggagagagctccgcattttcgtgctagagcttt----gcgcttctttc---gcagGGAGAGCTGGAGTCCCCATGGAAGTCATGGGACTGATGCTTGGGGACTTTGTGGACGAGTACACTGTTCGCGTGGTGGACGTCTTTGCGATGCCTCAGAG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|33390193|gb|CA853400.1|CA853400
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|298190679|gb|HO032800.1|HO032800
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|12773252|gb|BG238179.1|BG238179
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|192300390|gb|FG991462.1|FG991462
EST:     CGAGCAGGCCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|151394289|gb|EV264160.1|EV264160
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGCTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|213602552|gb|DB956572.1|DB956572
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|254326087|gb|GR840679.1|GR840679
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|120494533|gb|EH222700.1|EH222700
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|6341699|gb|AW164585.1|AW164585
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|213599137|gb|DB962230.1|DB962230
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|192303126|gb|FG994244.1|FG994244
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGG-ACCCATGGAAGTGATGGGTCTGATGT-GGGGGA
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGA
EST: gi|8669760|gb|BE190867.1|BE190867
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|23725587|gb|BU760753.1|BU760753
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|298182393|gb|HO026568.1|HO026568
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|209698688|gb|BW656513.1|BW656513
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|298190950|gb|HO038429.1|HO038429
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|298195630|gb|HO044021.1|HO044021
EST:     CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
EST: gi|151394039|gb|EV263910.1|EV263910
EST:     CGAGCAGGTCTACATCTCCTCCATCGCCCTTCTCAAAATGCTCAAACACG                         GAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG
genomic: CGAGCAGGTCTACATCTCCTCCCTCGCCCTTCTCAAAATGCTCAAACACGgtacgctatt ... ttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcctttgtttttgtttttgtctgataattttcaaaaccctaatttctgtgtagGAAGAGCTGGGGTACCCATGGAAGTGATGGGTCTGATGTTGGGGGAGTTCGTGGATGAGTACACCGTTCGCGTTGTGGATGTGTTTGCGATGCCTCAGAG
                                      ccctaat  putative branch site (score: 3)
                                            tttctgt  CT-rich tract
     tttgtttttgttttt  TA-rich tract