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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA

Basic information

species Selaginella moellendorffii
transcript EFJ31458
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os01g54870.1 (Oryza sativa), 3'ss of exon 3
--------------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                          ||  |    |   || || |    ||  || ||  | || ||| | ||        ||||    ||  |    |||||||| ||||||||||| || || ||||||||||||||||||||| || | ||||||||  |||| || |||||||||||||||||||||||||| || |
cacaatgatttaaattggctgagttagttcacgcttagtttattatcagctttttcaatagttta-cctgataatatttccttttgttgttttatc-tgcagATTTTTGAGAAGAACCCAACAACTATCAAGAACTATGGCATCTGGCTGCGTTACCAGAGTAGGACTGGCTACCACAACATGTACAAGGAGTACCGTGATA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os01g47660.1 (Oryza sativa), 3'ss of exon 3
--------------------gtaaagttct----ttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttc-gtgaca-cagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                     |  | ||||    |  |||  | || || | | |||    ||  ||| |   |     | |   || ||| |  |   ||||| ||||||   ||||| ||||||||||||||||||||||||||| || | ||||||||| | || || |||||||||||||||||||||||||| ||||
tttttgaacactagatcacactttacttctagtatgatttcacatttttgcatggatataata--ctttcttctctacccctcacaatttctgccatgtcagATCTTCGAGCGCAACCCAACCACGATCAAGAACTATGGCATCTGGCTGCGTTACCAGAGCAGAACCGGTTACCACAACATGTACAAGGAGTACCGTGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os05g49030.1 (Oryza sativa), 3'ss of exon 3
---------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaa---ctttggaacttcgtga------cacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                |||   |||    |  |  | | |  || |  | |  |   ||| ||  | | |   |||   ||| |  |||      | ||||| || |||   ||||| || |||||||||||||| ||||||||| || | ||||||||| | || || |||||||||||||||||||| ||||| ||||
gaaaagattggcttgctaagagtctagtgtgatactacatatcttggagttgaatagttaaaacagtgcaacccttctaaacattctgattgtatctcagATCTTTGAGCGTAACCCTACAACGATCAAGAACTACGGCATCTGGCTGCGTTACCAGAGCAGAACAGGTTACCACAACATGTACAAGGAATACCGTGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G022619_T01 (Zea mays), 3'ss of exon 3
--------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttgg--aacttcgtga--cacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                    |    |   |  |    ||  |  |||  | | | ||||    | ||  |  |  | ||      |||  ||   | ||||| ||||||   ||||| ||||| ||||||||||| ||||||||| || ||||||||||| |||||||||||||||||||||||||||||||||||||||
gccagagctggtcgaggatggctttgcaatcccaaagtcacttgttctcctaagttctatttgtccacctctgctccttaactggcttgatgtttctcagATCTTCGAGCGCAACCCAACCACCATCAAGAACTACGGCATCTGGCTGCGGTACCAGAGCAGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G113720_T02 (Zea mays), 3'ss of exon 2
-----------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaac----ttcg---tgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                    ||  ||  |  ||  |||   |   | | |  |||   | |  |  |  || |||   |||    ||||   |  | ||||| || |||   ||||||||||| ||||||||||||||||||||| || | ||||||||| |||| || |||||||||||||||||||||||||||||||
gaggatgggcttgcaatcccaaagtcacttgttcacttagatgttttgtttttctccacatctacttctgagcttcataacacatttcgatgtttctcagATCTTTGAGCGCAACCCGACCACCATCAAGAACTATGGCATCTGGCTGCGCTACCAGAGCAGGACTGGTTACCACAACATGTACAAGGAGTACCGCGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: AC230013.2_FGT007 (Zea mays), 3'ss of exon 3
-----------gtaaagttctttctttttctttctttcctcgatgctctag-----ccttacaagtgagaactttg-----gaacttcgtgac---acagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
           |   |   |||    || |        ||   | ||| |      ||||     || |   ||||     |  ||   |||     ||||| ||||||   |||||||| |||||||||||||| ||||||||| || | ||||||||| | || || |||||||||||||||||||||||||||||||
agatgaatgatggcgatcccttgtccttgcagctgaatcttattactcgaaagaatcctttgtgttgtgtcatttgctaaagtcctgtatgatgtggcagATCTTCGAGCGTAACCCGACGACGATCAAGAACTACGGCATCTGGCTGCGCTACCAGAGCAGAACCGGCTACCACAACATGTACAAGGAGTACCGCGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G126928_T01 (Zea mays), 3'ss of exon 3
----------------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                            |||  ||| ||| || |  |||         ||  | |   ||||   ||   |  | || |   |  ||   ||||| || |||   |||||||| || ||||||||||| ||||||||| || | ||||||||| | || || |||||||||||||||||||||||||||||||
atacctgacctctgcctgtcatagttctgtaccgttttttgttctcatttgcaagaatcat-ttgtgttcttatccgtacaagttctgta---tgctgtatcagATCTTTGAGCGTAACCCGACGACAATCAAGAACTACGGCATCTGGCTGCGCTACCAGAGCAGAACCGGCTACCACAACATGTACAAGGAGTACCGCGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G077256_T01 (Zea mays), 3'ss of exon 2
---------------gtaaagttctttctttttctttcttt--cctcgatgctc--tagccttacaagtgagaactttggaacttcgtga------cacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA--
                | |||  |||  | | | |   |||        || |   |    |||  | ||    |||   ||| |  ||       ||||||| |  |||   ||||| || |  |||||||||| |||||||||| || | |||||| || |||| || |||||| || || |||||||||||||  | |  
gttcatcatttgcccttgaagcccttgttctctgtaaatttaaatgtagtgtttgtttattttatca-tgtatgcttctaaacatgctggatctttcacagATCT--GAGTGTAACCCTACAAAAATCAAGAACTGTGGCATCTGGCTGTGTTACCAGTGCAGGACAGGTTACCACGACCTGCACAAGGAGTACCGTAATACC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G077256_T04 (Zea mays), 3'ss of exon 2
gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA---------------------------------------------------------
                       |||  |  ||  | ||  |||  ||    |     |||| |||     ||||||| |  |||   ||||| || |  |||||||||| |||||||||| || | |||||| || |||| || |||||| || || |||||||||||||  | |                                                         
-----------------------tttattttatcatgtatgcttctaaacatg----ctggatcttt----cacagatct--gagtgtaaccctacaaaaatcaagaactgtggcatctggctgtgttaccagTGCAGGACAGGTTACCACGACCTGCACAAGGAGTACCGTAATACCATCCTGAATGGTGCCATGGAGCAGATGTACAATGAGACGGCTTCCTGTTTGTCAC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA15G10220.1 (Glycine max), 3'ss of exon 3
----------------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                             | || | |  | ||  | ||   ||     ||  |     ||      ||   | ||    | ||  |    |||||||| ||||||||||| ||||  || ||||||||||| || ||| || |||| |||||  |||| || |||||||||||||||||||||||||| ||||
ctggatttgcggattatttcaactcagtttgaaatacaatgttagttttctgttggctaattgtgggtgctctgttctgttgaatt----attttattttccagATTTTTGAGAAGAACCCAACCAAAATTAAGAACTATGGTATATGGTTGCGGTATCAGAGTAGGACTGGTTACCACAACATGTACAAGGAGTACCGTGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA18G13270.1 (Glycine max), 3'ss of exon 3
-------------gtaaagttctttctttttctttctttcctcgatgctctagcct-----tacaagt-gagaactttggaacttcgtg----acacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA-
               |   || |||     | ||| |  | ||     ||||| ||     | ||    | ||  | |    |||  ||        ||||||| ||||| || || |||| ||||||||| ||||| || ||| || | || |||||||| || || || ||||||||||||||||| || ||||| | 
taggagtacctggagacgatttttttcccctgtttttagcttcagcattctaggctccaattgcagacagtgatgtataattctttatgcttattgtagaTTTTTGAGAAAAATCCTACCAAGATCAAGAATTATGGAATTTGGCTGCGATATCAGAGCCGAACTGGTTATCACAACATGTACAAGGAATATCGCGATAC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA14G03380.1 (Glycine max), 3'ss of exon 3
-------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtg-agaactttggaacttcgtgaca----cagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                     |||  | | | ||||   |||      |  |  | | |    |        ||  ||||    || ||        |||||||| |||||||| || |||| ||| ||||| ||||| || ||| || | || |||||||| || || || ||||| ||||||||||| ||||| || |
ttaggaaagaaatacttgaacaaatatttgtattttagcttccaattgctgtcttattggacaatggacatggaggtttgagtttttgtactgattgcagATTTTTGAGAAGAATCCTACCAAGATTAAGAATTATGGAATTTGGCTGCGTTATCAGAGCCGCACTGGTTATCACAATATGTACAAGGAATACCGAGATA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA02G45430.1 (Glycine max), 3'ss of exon 3
-------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtg-agaactttggaacttcgtgaca----cagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                     |||  | | | || |   |||      |  |  | | |    |  |     ||  ||||    || |||       |||||||| |||| ||| || |||| ||| ||||| ||||| || ||| || |||| ||||| || || ||||| ||||| ||||||||||| ||||| || |
ttaggaaagaaatactagaacaaatatttgtattctaggttccaattgcagtcttattggacaatgaacatggaggtttgattttttgtgctgattgcagATTTTTGAGAGGAATCCTACCAAGATTAAGAATTATGGAATTTGGCTGCGGTATCAGAGTCGTACTGGGTATCACAATATGTACAAGGAATACCGAGATA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: Vv10s0003g03130.t01 (Vitis vinifera), 3'ss of exon 3
-----------------gtaaagttctttctttttctttct--ttcctcgatgctctagccttacaagtgagaactttgga--acttcgtgac---acagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                  |||  |  | | ||   | ||||  ||     |   | | |  || |   | |  |  ||     ||| | || |    |||||||| ||||||||||| ||||| |||||||||||||| || ||| || |||| || || || || || || ||||||||||||||||| ||||| ||||
aatgtcaagcttgtattttaatatgttgtattgcaccttctgattaaaaaaaaatgtcgtatttcccctcattatgtttagctactacatgtcgctgcagATTTTTGAGAAGAACCCAACCACAATCAAGAACTATGGGATTTGGTTGCGGTATCAAAGTCGAACTGGTTATCACAACATGTACAAGGAATACCGTGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: Vv10s0003g03150.t01 (Vitis vinifera), 3'ss of exon 3
gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtg---agaactttgga-------------------acttcgtgaca---cagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
 | ||| |  | |||     | || |  | |    |||     || | | |   | ||||||| |                    || | || ||   |||||||| ||||||||||| ||||| |||||||| ||||| || ||| || |||| || || || || || || ||||||||||||||||| ||||| ||||
-tcaagcttctacttcaatatgctgtattggcccttctgattgtaaagggggaaaaaactttgtattgcccttcattatgtttagctgcatgtcactgcagATTTTTGAGAAGAACCCAACCACAATCAAGAATTATGGGATTTGGCTGCGGTATCAAAGTCGAACTGGTTATCACAACATGTACAAGGAATACCGTGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: Vv19s0135g00100.t01 (Vitis vinifera), 3'ss of exon 3
-------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttgg---aacttcgtga--cacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                    | |||   | ||| || | |   |  ||   | ||  |   ||  |  |      | ||    |   || | |    |||||||| |||||||| || |||| ||| || |||||||| || ||| || | || |||||||| || || || ||||||||||||||||| || || ||||
tgtctttttagaaccagatcttaagccatatctcttacctaaatgtctttttccttaacttttttattttttttttctgagtaattctcattaactgcagATTTTTGAGAAGAATCCCACCAAGATAAAAAACTATGGAATTTGGTTGCGATATCAGAGCCGAACTGGATATCACAACATGTACAAGGAATATCGGGACA

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: EDP09481 (Chlamydomonas reinhardtii), 3'ss of exon 3
-----------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtg-acacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                               | |     |||   ||  |||    || | | ||   |   |     |    |   | ||    | ||||| ||||||   || || |||  |  ||||||||| |||||||||||  | ||||||   || |||||    ||||||||||||||||||||||||||| 
gcgccgcgtgccacatcctgtctcctgcacgcatgacgcttccgcctgccctgcccgcgccaacccgccgcatcctcgcccctgccttacgcacgcgcagATCTTCGAGCGCAAGCCCACCCTGGCCAAGAACTACGGCATCTGGGTTCGCTACCAGTCGCGCACGGGCGTGCACAACATGTACAAGGAGTACCGCGACG

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S74_193V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------gtaaagttctttctttttctt----tctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                      | ||    |  |  | ||      |  |     ||  |  | | | |   | |  |||  |    |     |    |||||||| |||||| |||| ||||| |||||||||||||| ||||||||| | || ||||| ||||| |||||||||||||||||||||||||| || ||| 
ccgttctcagtgtatacgctcttgaaaccatcccaatgtcgggaaattataagcagagacaattgtcgt-tgaatatgaatctgaccagacgttcctgcagATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGTATCTGGGTGCGTTATCAGAGTCGGACCGGGTACCACAACATGTACAAGGAGTATCGTGACC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S56_243V6.3 (Physcomitrella patens), 3'ss of exon 3
-----------------gtaaagttctttct----ttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtga---cacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                 |  || || | |      | ||  |  |   || ||   |   |      |    |  |||   | | ||  |||     |||||||| |||||| | || ||||| |||||||||||||| ||||||||| | || ||||||||||| || |||||||||||||||||||||||||| ||| 
agatacattgtttgagggcgaaattatgttaacaatgttaatcatgggcttgaaagtgacgttacgaattctattactaatgtagtttttgaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGTTATCAGAGCCGGACTGGCTACCACAACATGTACAAGGAGTACCGTGACC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 3
---------------------------------gtaaagttctttctttttc----tttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                                  | ||    |  |  | ||      |  |     ||  |  | | | |   | |  |||  |    |     |    |||||||| |||||| |||| ||||| |||||||||||||| ||||||||| | || ||||| ||||| ||||||||||||||||||||||            
ttcaatttcgaaccgttctcagtgtatacgctcttgaaaccatcccaatgtcgggaaattataagcagagacaattgtcgt-tgaatatgaatctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGTATCTGGGTGCGTTATCAGAGTCGGACCGGGTACCACAACATGTACAAGG------------

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S5_178V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------gtaaagttctttctttttctttctttcctcgatgctct-agccttacaagtgaga-actttggaact---tcgt-gacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                  |  |   || |||     |   |     | || |   | ||||  | ||    || |||     ||    |||| |   |||||||| |||||| |||| ||||| |||||||| ||||| ||||||||| | || ||||| || || || |||||||||||||||||||||||||| ||| 
atcactagcatattttatgggagactcattcagcgacaaacggatgtagaggaaatgagccagataatcatgatactgaatgacccaatcgttgtttcagATTTTTGAGAAGTACCCTACCACTATCAAGAATTATGGTATCTGGGTGCGTTATCAGAGTCGAACTGGCTACCACAACATGTACAAGGAGTACCGTGACC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S184_111V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                            | || | ||    |   ||   ||  | | |  || |   | |    ||| ||   | |   | ||     ||||| ||||||||| | || || || ||||||||||| || || |||||| ||||||||||||| || || |||||||||||||||||||| ||||| ||  
agtgggcgttaaggatatgtgggaatccagagattttggagtcggttcacttgatggtttatccaatttcattgttgacaatgcttg--ttgcgcatgccagATCTTCGAGAAGTATCCAACTACCATCAAGAACTACGGTATATGGGTGCGGTACCAGAGCCGAACCGGCTACCACAACATGTACAAGGAATACCGTGATC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S44_13V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------gtaaagttctttcttttt--------ctttctttcctcgatgctctagccttacaagtga--gaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
              |  | |||   |     |        | ||  || |   | | |  |         || |  ||||  |     | |      |||||||| |||||| |||| ||||| ||||||||||| || || ||||||||||| || || || || || |||||||||||||||||||| ||||| ||  
gacaaacgggcaatgccacgtttcgttaacctaaagagagcattggttaccgaaggttgcacatcggtgtgtcactgaacactcctgttgcccattccagATTTTTGAGAAGTACCCTACCACCATCAAGAACTACGGTATTTGGGTGAGGTATCAAAGTCGTACCGGATACCACAACATGTACAAGGAATACCGTGATC

upper sequence: EFJ31458 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S101_218V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------gtaaagttctttctttttctttctttcctcgatgc-tctagccttaca-agtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                        | | |  | ||  |    | | |||    ||  |  || |   |   | | | || |  |  |   |||| |   ||||| || |||||| | || ||||| ||||||||||| || ||||||||| | || || ||||| || || |||||||| ||||||||||||||||| ||  
cggtctctgagggtatatagcaatgcagatattttgatacagcctacttcaggcggagtgtccaatttcgaatattaaggatgtctg--tttcgcggttcagATCTTTGAGAAGTATCCAACCACCATCAAGAACTACGGGATCTGGGTGCGATATCAAAGCCGAACCGGCTACCACAATATGTACAAGGAGTACCGTGATC

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: 34 (upstream exon), 35 (downstream exon)
Score: 62

GTACTTCCTTCGCAAGCTCAAGAAGGTGAAGAAGTCTCACGGCCAGATCCTCGCTATCAACGAGgtaaagttct ... cgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA
                  gccttac  putative branch site (score: 62)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagttctttctttttctttctttcctcgatgctctagccttacaagtgagaactttggaacttcgtgacacagATTTTCGAGAAGAACCCGACCACGATCAAGAACTATGGCATCTGGGTGAGGTACCAGAGCCGGACGGGGTACCACAACATGTACAAGGAGTACCGCGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG