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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgacagttattctgaattcaagcgctcgatcgaaagttcttaaaggtttcttcttcttgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG

Basic information

species Selaginella moellendorffii
transcript EFJ15083
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os07g02800.2 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------gtg-cgac-agttattctgaattcaa---------gcgctcgatcgaaagttcttaaaggtttcttcttcttgatc---cagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                                               |||  ||  | ||| | || | | |          || |  | |      ||| | ||    |    |  |||||    ||||||||||||||||||||||| | || || |||||||| ||||| || ||||| || || || |||||||| || |||
gtacacttaattaattcattaattaattgccatttctagagctaagagcacctgcatctgcatgtggtgattaattactttggaattagtaattagttgctcatggtgattgattcctgaattgattgattgattgattgtgcagTTGCCACTCCAAAGCAAATCAGGGAGCTGATGAAGGTGGATGGACTGACAAATGACGAGGTCAAAAGCCATCTTCAG

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os07g02800.3 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------gtg-cgac-agttattctgaattcaa---------gcgctcgatcgaaagttcttaaaggtttcttcttcttgatc---cagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG-----------------------
                                                               |||  ||  | ||| | || | | |          || |  | |      ||| | ||    |    |  |||||    ||||||||||||||||||||||| | || || |||||||| ||||| || ||||| || || || |||||||| || |||                       
gtacacttaattaattcattaattaattgccatttctagagctaagagcacctgcatctgcatgtggtgattaattactttggaattagtaattagttgctcatggtgattgattcctgaattgattgattgattgattgtgcagTTGCCACTCCAAAGCAAATCAGGGAGCTGATGAAGGTGGATGGACTGACAAATGACGAGGTCAAAAGCCATCTTCAGGTGAGGAAAATTCACCACTGTTT

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os03g55590.1 (Oryza sativa), 3'ss of exon 3
-----------gtgcgacagttattctgaa-ttcaagcgctcg--------atcgaaagttcttaaag---gtttcttcttcttgatc-cagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
           |  ||||  | ||| | |  ||| |    | |        | || || | || | |    |||  | |  | ||||  ||||||| ||||||||||||||| | ||  | |||||||| ||||| || || ||||| ||||| |||||||| ||||||
gtatattacatggtcgaccatcattttcaccttccataatttgcaaagatcaccggaaatcctcatatcttgttgttccaccatgattgcagTTGCTACTCCAAAGCAAATCAGGGAGGTGATGAAGGTTGATGGGCTCACCAACGACGAAGTGAAAAGCCATCTCCAG

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G173882_T01 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------gtgcgacagttattctgaattca-agcgctcgatcgaa--agttcttaaaggtttcttcttct-tgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                                                         |   | | |   |  |  || |  || | | ||   ||  ||||| |  | || |  |  |||    | |||||||||| |||||||| ||| | || || |||||||| || || || |||||||| ||||| ||||||||||| |||
gtgagccttgctcttcagatgcaaattatttcttgccggttttgggcggcctgcagcgtgttcttacctacttgcttgcctgccgtattagatacgtagagttggaattaacgagttcattcatgtctgattgtctgcactgcagTTGCCACCCCAAAGCAGATCAGGGAGCTGATGAAGGTGGACGGCCTCACAAACGACGAAGTGAAAAGCCACCTTCAG

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G124540_T01 (Zea mays), 3'ss of exon 3
-----------------------------gtgcgacagttattctgaattcaagcgctcgatcgaaagttcttaaaggtttcttcttcttgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                             ||  ||   ||| |   | ||     ||| ||  || |  | |||| |  ||   |   | | | ||||||| ||||| ||||| ||| | ||  | |||||||| || || ||||||||||||||||| |||||||| ||||||
gtacatatacacgacaccgcggatcgtctgtaagaagtttactactagtt-gcttgctagag-gagatgtgttaacgaatttcaccgttggttgcagTTGCTACTCCGAAGCAGATCAGGGAGGTGATGAAGGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G171468_T02 (Zea mays), 3'ss of exon 3
-------------------------------------------------gtgcgacagttattctgaattcaagcgctcgatcga--aagttcttaaaggtttcttcttcttgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                                      | |    |||   | || |  ||  ||   |  ||||  | |  ||| |||  |      | |||| || ||||| || || ||| | ||  | ||| | || || || ||||||||||||||||| |||||||| ||||||
gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA07G29490.1 (Glycine max), 3'ss of exon 3
------------------------------gtgcgacagt-tattctgaattcaagcgctcgatcgaaagttcttaaaggtttcttcttcttgatc-cagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                   |   | |   ||    |  ||  |  ||| |     | | ||    ||  || | |  ||  |||   | ||||||||||||||  | |||||||||| ||||||||| || || || ||||||||||| || ||  | || 
aaagttctctacaagaacagatttgacaagtcataatgatatgacctcttatttagttcatgattgtctagtttaaatctcttggtcatttcaattgcagCAACTACTCCAAAGCAAATTAGGGAACTCATGAGGGTAGATGGCCTGACCAATGATGAAGTAAAGAGTCATTTACAA

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA20G01260.1 (Glycine max), 3'ss of exon 3
---------------------------gtgcgacagttattctgaattcaa----gcgctcgatcgaaagttcttaaaggtttcttcttcttgatc-cagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                             |  | | | ||  ||  |   |    |  |   || |     | | ||     |  |    | ||   |||  || ||||||||||||||  | |||||||||| ||||||||| || || || ||||||||||| || ||  | || 
agttctttacagaaacacagatttggcaagtcataatcatattgtctcttatttggttcataattgtctaatttaaatctcctggttacttcgactgcagCAGCTACTCCAAAGCAAATTAGGGAACTCATGAGGGTAGATGGCCTGACCAATGATGAAGTAAAGAGTCATTTACAA

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: Vv07s0197g00060.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------gtgcgacagttattc--tgaattcaagcgc-tcgatcgaaagttcttaaaggtttcttcttcttgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                  || ||   |   ||  |||||| ||   | ||      | | |  | ||  |||| | ||||     |||  |||||||| || || || |||||||||||| | || || ||||| || ||||||||||||||||||||  | |||
agatttctaatggaaaagttttcagaaaacaatttgagatcatggatccttgaattgaattccatctgggacatgctactgaaattttccttttctg----cagCAGCCACTCCTAAACAGATTCGAGAACTCATGCAAGTGGAAGGTCTCACTAACGATGAAGTAAAAAGCCATTTACAG

upper sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S83_100V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------gtgcgacagttattctgaattcaagcg-ctcgatcgaaagttcttaaaggtttcttcttcttgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                 |  |    ||||  || |||| | |  | | |    || |||    |       | |  ||| | |||||||||| ||||||||||| || || || |||||||| || || ||||| ||||| ||||| || ||||| || |||
tttctctgtgtcggcattctccttgcattttgttctggtgtttatgttggattcgaacttcacaaattcaacttcactgacacgggctgtggttg-tgcagTTGCCACGCCAAAGCAAATACGCGAGCTGATGAAGGTCGACGGCCTTACCAACGACGAAGTGAAGAGCCATCTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgaattcaagcgctcgatcgaaagttcttaaaggtttcttcttcttgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                            tcttgat  putative branch site (score: 4)
                                    tttcttcttcttgatc  CT-rich tract
                          ttcttaaa  TA-rich tract