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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG

Basic information

species Selaginella moellendorffii
transcript EFJ17401
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os03g50885.1 (Oryza sativa), 3'ss of exon 1
---------------------gtgcgctcc-tggcgcggtttcttgtggattttgatccgg-----ggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                     |||   ||| |    ||   |  ||    | ||| |         | ||||  || |  |||||||| || |||||||| ||||| |||||||| || || ||||||||||| ||||| ||    ||||| || |||||||| |||||||| |||||||| |
gtaagctgtttggatctcagggtggtttccgtttaccgaaatgctgcatttcttggtagcaaaactgaggtggtttgtgtcagGCTGGGTTCGCCGGAGATGATGCGCCCAGGGCTGTCTTCCCCAGCATTGTCGGCCGCCCTCGCCACACCGGTGTCATGGTCGGAATGGGCCAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os01g73310.1 (Oryza sativa), 3'ss of exon 2
------------------------gtgcgctcctggcgcggtttcttgtggattttgatccgggggg------tgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                         |          |  |  | |   || ||||| | |     |       |    | ||||||||||| ||||| ||||| ||||| || ||||| || ||||| |||||||| || || ||    ||||| || |||||||| || ||||||||||||||||
gtcaggaacttcatcttttaaaccatctatcatctccaagactccaactgcatttttaccaatttgaattccttaaaattttgcagGCTGGGTTTGCTGGAGATGATGCACCAAGGGCTGTTTTTCCTAGCATTGTTGGTCGTCCTCGCCACACTGGTGTCATGGTAGGGATGGGGCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 3'ss of exon 2
---------------------------------------gtgcgc-tcctggcgcggtttc-ttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                        | | | |  |   | | |||  | ||  | |||  |      |     | || ||||||||| ||||| || |||||||| |||||||| || || || || || ||||| || |||   ||||| || || |||||||| ||||||||||||||||
gttcgtggtgctcattcgtagtatttctttgtagcagttatccccatgtttatgtgatttaatcgtatactttacttttcttgcgaattgctggcagGCTGGGTTTGCTGGGGACGATGCGCCCAGGGCTGTTTTCCCTAGTATCGTGGGGCGCCCCCGTCACACCGGTGTGATGGTTGGTATGGGGCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os01g64630.1 (Oryza sativa), 3'ss of exon 2
-----------------------------------------------------------gtgcgctcctggc-gcggtttc--ttgtggattttgatccggggggtgtgttcttgc-------agGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                            | | ||  || | ||   | |  |||| |      |      |    | |  |          |||| || ||||| || || ||||| |||||||| || ||||| |||||||| ||| ||||    ||||| || ||||||||||| ||||| ||||||||||
gttagttaattttcctgccacgctgtaaaactgttagttcgcacaattgggatgttcagattctcttttgcctgctaatacatttgtagcacccaacgaattgatcatttcttcatgtggaatagGCCGGTTTTGCTGGTGATGATGCACCCAGGGCTGTCTTTCCTAGCATTGTAGGCAGGCCACGCCACACTGGTGTCATGGTTGGTATGGGCCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G006765_T02 (Zea mays), 3'ss of exon 2
-----------------gtgc-gctcctggcgcggt----ttcttgtgg-attttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                   || ||| |  |  | ||    || || ||  | ||| |||           | || ||||||||| ||||| || |||||||| || ||||| || || || |||||||| || || ||    ||||| ||||| |||||||| ||||||||||||||||
gtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgttaatttaatcacatcacaaactactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTTGGACGCCCACGTCACACTGGCGTGATGGTTGGCATGGGGCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 2
--------------------------gtgcgc-tcctggcgcggtttcttgtggattttgatccggggggtgtg------ttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                           | |   | |||   |  |||  ||   ||||     |  |   | |       |  | ||||||||| ||||| || |||||||| || ||||| || || || |||||||| || || |||   ||||| || || |||||||| ||||||||||||||||
gtttgtagttcttgttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttcttacaaactattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTCGGACGCCCCCGTCACACTGGTGTGATGGTTGGCATGGGGCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G053299_T01 (Zea mays), 3'ss of exon 2
-------------------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                           |    ||      || |||  |   | ||    | ||   |    | |   |||||||||| ||||| || || ||||| ||||| || ||||| || || || || ||||| ||   ||||||||| || |||||||||||||| |||||||| |
gttcgatgctcgttctatctaccatgttcattcattcatctctgaaacctgtaaaggcagttgttgcagaatgaccagcccatg--cttctctctgcagGCTGGCTTTGCTGGTGATGATGCGCCCAGAGCAGTGTTCCCTAGTATAGTCGGCCGCCCTCGGCACACGGGTGTGATGGTTGGAATGGGCCAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA09G17040.1 (Glycine max), 3'ss of exon 1
-----------------------------------------gtgcgctcctg-gcgcggtttcttgtggattttgatccggggggtgtgt--tcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                         ||| | | |   | | |   |  |  ||    |  | |      |||    | ||||||||||||||||| ||||| |||||||| ||||||||||| || ||||||||||| || ||    ||||| || || ||||||||||||||||| |||||||
agttttgtcttttggtttttgatgatactagattttgacccgtgggatacaaagagagaactaattgggtgagtacttcaaattatgttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCCGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA03G30110.1 (Glycine max), 3'ss of exon 2
--------------------------------------------gtgcgctcc-tggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                               | |    |  | |  ||  | |||  ||    |    ||| | |||  |   ||||||| ||||||||||| ||||| || ||||| ||||| |||||||||||||| || ||    |||||||| || |||||||| ||||||||||||||||
tagcagagataatcgaatttgcgatcttttcccttaatcattcaacccaccttatatcccccttaatagtgtgttaatgttgttgggatttgtg-tgatagGCTGGTTTTGCCGGAGATGATGCGCCGAGGGCGGTGTTCCCCAGCATTGTGGGGCGTCCACGTCACACGGGAGTGATGGTTGGGATGGGGCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
----------------------------------------------gtgcgctcctggcgcggtttct-tgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                               |  | |  ||  |   ||||| | | | | |||||  | |   |    | ||||||||||||||||| ||||| |||||||| ||||| ||||| || ||||||||||| || ||    ||||| || || ||||||||||||||||| ||||| |
tggagaacaacacctaaaacagaatggaactgtatctaagttgtcctttggtttttgatgatttttctctttcggtgttgatttgtg---ttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA11G14880.1 (Glycine max), 3'ss of exon 1
-------------------------------------------------gtgcgctcctggcgc-----ggtttcttgtggattttgatccggggggtgtgttct----tgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                 |||     || |  |       |||||  ||  ||    |  |     ||| || |    |  ||||||||||||| || || |||||||| ||||| ||||||||||||||||| || || |||   |||||||| || |||||||| ||||| || || ||||
gtaagatagatatctggacggttttatttccaatatttttgttcctacagtgattagctagtacttttcaatttctattgatttaccgtgagtctactgtattgtaatgtttagGCTGGATTTGCTGGGGATGATGCTCCAAGGGCTGTGTTTCCCAGCATTGTTGGTCGTCCCCGTCACACGGGAGTGATGGTTGGCATGGGCCAAAAAGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA12G06820.1 (Glycine max), 3'ss of exon 2
-----------------------------------------gtgcgctcctggcgcggtttcttgtggatt---ttgatccggggggtgtgttct---------tgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                          |||  |  | |  | ||   ||     ||   |||||     | || |  | |         |  ||||||||||||| || || |||||||| ||||| ||||||||||||||||| || || |||   |||||||| || |||||||| ||||| || || ||||
gtaagatatctggatggttttattttcaatatttttgtttcctgcagtgattgaccagtacttttcaatttctattgatttactgagtctactgtattgcaatgtttagGCTGGATTTGCTGGGGATGATGCTCCGAGGGCTGTGTTTCCCAGCATTGTTGGTCGTCCCCGTCACACGGGAGTGATGGTTGGCATGGGCCAAAAAGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA05G32220.1 (Glycine max), 3'ss of exon 1
-------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttg-------cagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                || |||  ||   | | |     ||  ||   | | |     |   || |         |||||||||||||| || || |||||||||||||| || |||||||| ||||| ||||| ||    ||||| || || |||||||| ||||| || |||||||
gttagtacttagcggctttgttttttgtttcatgtgcttgtgcatctgctagccttgagttcataactgaatctttgattttaatatggaacagGCTGGATTTGCTGGTGATGATGCTCCCAGGGCTGTCTTTCCCAGTATTGTTGGCCGACCTCGACACACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA19G32990.2 (Glycine max), 3'ss of exon 1
------------------------------------------gtgcgctcctggcgcggtttcttgtggattttgat-ccggggggtgtgt-tcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                || |    |    |       || || ||   |  |||| ||| |  |  ||||||| ||||| ||||| ||||| || ||||| ||||| || ||||||||||| || ||    ||||| || || |||||||| ||||||||||||||||
ggggggggggggtgttggcatttaggatctgttacaatgtaaaattattcttaattcttaattaataaaatgttaatgttgttgggtttgtgtgatatagGCTGGTTTTGCTGGAGATGATGCACCGAGGGCTGTGTTCCCTAGCATTGTGGGGCGTCCACGTCACACTGGGGTGATGGTTGGGATGGGGCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA15G05570.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------gtgcgctcctggcgcggtttcttgtg---gattttgatccggggggtgtgttc-----ttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                               ||||   | | |      || ||      ||| |||||        | |  ||     ||||||||||| ||||| || || |||||||| ||||||||||| ||||||||| | ||  | ||    || || || || |||||||| ||||| ||||||||||
gttagaagatgttttgccaattgatgagtgtttcttgtgccattgaagaagactgttcactctgtgcttgcttagtattcattgttaaatatgatattgatatatatatttttctcgatgtttgcagGCTGGTTTTGCAGGTGATGATGCTCCTAGGGCCGTGTTCCCCAGCATTATTGGGAGACCACGCCATACTGGTGTAATGGTTGGGATGGGTCAGAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 2
----------------------gtgcgctcctggcgcggtttc---ttgtggattttgatccggggggtgtgttcttg-------cagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                       |  | | |  | ||   | |   |  ||  ||   |   |     | | || |         ||||| |||||||| || ||||||||||| ||||| || |||||||| ||||| ||||| ||    || || || || |||||||| ||||| || |||||||
gttagtacttcgtggatttttgttttgttgcatgtgcatatgcaagtcttgagttcataagtgaataatttattttaatatggaacagGCAGGATTTGCTGGTGACGATGCTCCTAGGGCTGTCTTTCCCAGTATTGTTGGCCGACCTCGACATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA04G39380.2 (Glycine max), 3'ss of exon 2
------------------------------------gtgcgctcctggcgcggtttc-ttgtggat---tttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                    |         | | ||||||| || |  |    |||  | |        | |   | ||||| |||||||| || || |||||||| ||||| ||||||||||| ||||| ||||| ||    || || || || |||||||| ||||| || |||||||
gttagtactttgcagtttcttctgttatgtgtaattgcatctattagtctcggtttcgttatcaaacgatttatttctataatgatctgtgtacagGCAGGATTTGCTGGTGATGATGCTCCTAGGGCTGTGTTTCCCAGTATTGTTGGCCGACCTCGTCATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------gtgc-gctcctggcgcggtttcttgtggattttgatccggggggtgtgttct-tgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                              ||| ||||||     | |   ||           |||  |   ||  || | |||||||||||||||| || || |||||||||||||| |||||||| || |||||||| ||||| | |||||| || ||||||||||| ||||| || || ||||
gtctgttgtttctttcttgcttgatatgcagatttgttgtgttgtttgctgctcctcaaatgctcaatttgaataagctttccatgttatgctttatatgcagGCTGGATTTGCGGGTGATGATGCTCCCAGGGCAGTGTTTCCTAGTATTGTGGGTCGGCCAAGGCACACTGGTGTCATGGTTGGGATGGGTCAAAAAGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: Vv08s0007g06520.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                  |  |       | | ||| ||| |    |||||| |      | ||   || |||||||||||||| ||||| |||||||| ||||| |||||||| |||||||||||  | ||    ||||| || || |||||||| ||||| ||||| ||||
gtattgattcagaatccaaaatgttgtttgagtttgtgggattgattggatttggagaatacccagttgcttattt-ctttgattctt----tctgaaatttcagGCTGGATTTGCTGGAGATGATGCTCCGAGGGCTGTGTTTCCTAGCATTGTGGGTAGACCTCGACACACTGGAGTGATGGTTGGGATGGGACAGAAAGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 1
--------------------------------------------gtgcgctcc-tggcgcggtttcttgtggattttgatccgggg-----------ggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                             ||   ||    |   |  || || | |  ||   || | |              |||  ||||  ||||||||||||| ||||| |||||||| ||||| ||||| ||||||||||| || || |||   ||||| || || |||||||| ||||| ||||| ||||
gtatcaaatgaggattctttctatgtgaatgtttagtagaatgcttgtattctacagtctgcctttttcttgtattcagtctgagataactgattgcaatgttatcttctagGCTGGATTTGCAGGAGATGATGCTCCTAGGGCTGTGTTCCCCAGCATTGTAGGTCGTCCCCGTCACACTGGTGTAATGGTTGGCATGGGCCAGAAAGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttct-----------tgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                  |  ||     | |    |  ||||   ||||| |        |     ||           |||||||||||||||| || || |||||||| ||||| ||||| ||||| ||||| ||||| ||    ||||| || ||||||||||| ||||| || |||||||
attaaactgattctgtttgctgtggcgaggtgaatttgcattcagtgattatctttgttagttttgttttcacacattaacgctgctcaaaaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTTGGCCGACCTCGACACACAGGTGTCATGGTTGGGATGGGCCAAAAGGATG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------------------------------------------------------------------------------------gtgcgctcctggcgcggtttct----tgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                                                                                      |  |  |   ||    |        | || | || | || ||    | ||     ||||||||| || |||||||||||||| ||| |||| || || |||||||| ||||| ||||| | |||||| || || ||||| || ||||| ||||| || |
gtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggc---gcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTGGGGCGGCCGAGGCACACCGGAGTGATGGTGGGCATGGGACAGAAAGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S381_21V6.1 (Physcomitrella patens), 3'ss of exon 2
----------------------------------------gtgcgctcctggcgcggtttcttgtggatt-ttgatccgggg--ggtgtgt-tcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                         | |||    ||||    || |||||||   |||||||      ||||  | |  ||||||| || || || ||||||||||||||| | || |||||||||||||| || || ||||| | |||||| || || ||||| || ||||| |||||||| |
ctgcattcttagatttgtagtttgctaccttaatgcagtccttcgcgttaggcgtcagttgttgtggaagattgatccaaaaatggtgcatgtaatgcagGCCGGTTTCGCGGGAGACGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 3'ss of exon 2
----------------------------------------gtgcgctcc-tggcgcggtttcttgtggattttgatccgg--ggggtgtgttct-tgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                        |||   ||  | | || ||       | |      |      | ||||  ||    ||||||||| || || ||||||||||||||| | || || || ||||||||||| || || |||| |||||| || || ||||| || ||||| |||||||| |
caattcatgctataatggcgttcatgataatactattcaagtgacttcagttgtgctgtccagaacgaaaccgtgtttaattgtggtgaattgaacgcagGCTGGTTTCGCTGGAGACGATGCTCCCCGCGCTGTTTTCCCCAGCATTGTTGGGCGCCCCAGGCACACTGGAGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 3
-------------------------------------------gtgcgctcctggcgcggtttcttgtggat---tttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                 |  ||        ||| |    |   ||| ||   || |   ||  |  ||||||||| || || ||||||||||||||| | || || || ||||||||||| || || |||| |||||| || || ||||| || ||||| |||||||| |
ctcttttgcatctttatttataatgggcagacattggatgtagactaatttatgatcaatcctctcgaaactgtgtttaattttggtgaattgaac--gcagGCTGGTTTCGCTGGAGACGATGCTCCCCGCGCTGTTTTCCCCAGCATTGTTGGGCGCCCCAGGCACACTGGAGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
-------------------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgt-tcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                            ||  |   ||    ||    |       |  ||       ||||  | |  ||||||| || || || ||||| ||||||||| | || |||||||||||||| || || ||||| | |||||| || || ||||| || ||||| |||||||| |
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S198_157V6.1 (Physcomitrella patens), 3'ss of exon 2
-----------------------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                |  |     ||| |     ||     || ||| |   | | |  | ||  |||||||||| || || ||||| || || ||| | ||||||||||| ||||| ||||| ||||| | |||||| || || ||||| || ||||| |||||||| |
gtcatgggccaagctgggtcgttatcgtcttcttcacatcgtggtatctctgtgatcggcacaaaacctaa--aatgttggtattgtgcggat-tttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S198_157V6.3 (Physcomitrella patens), 3'ss of exon 2
-----------------------------------------------------------------------------------------------------------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                                                                                                                    |  |     ||| |     ||     || ||| |   | | |  | ||  |||||||||| || || ||||| || || ||| | ||||||||||| ||||| ||||| ||||| | |||||| || || ||||| || ||||| |||||||| |
gtatgatattaactgttttgatgatgcatttgtattctccctatgtgatgaagtggcttgcaataaaatgcagttctaaagcatgtcatgggccaagctgggtcgttatcgtcttcttcacatcgtggtatctctgtgatcggcacaaaacctaa--aatgttggtattgtgcggat-tttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S198_154V6.3 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------gtgcgctcctggcgcg-gtttcttgtgg-attttgatccggggggtgtg---ttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                                        |  |      |  |   | ||||||   ||  |||        ||| |   ||  |||||||||| || || ||||| || || ||| | ||||||||||| ||||| ||||| ||||| | |||||| || || ||||| || ||||| |||||||| |
aaccttaacttgcgtaccctcaatttttatcatcacttcatctgtctggagttcacatctcttgtaacatgatgagtaatcacgtgcggattttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 21 (upstream exon), 22 (downstream exon)
Score: 4

ATGGCGGAGGAAGAAATCCAGCCCCTGGTGTGCGACAATGGATCCGGGATGGTCAAGgtgcgctcct ... gttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG
                           ttttgat  putative branch site (score: 4)
                                            tgttctt  putative PPT
                          attttgat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgttcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG