ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtatggaatccgactagttttctggtcttttctattgattcttggggaatcgtggcgatttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG

Basic information

species	Selaginella moellendorffii
transcript	EFJ23006
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2

--------------------------gtatggaatccgactagttttctggtcttttctattgattcttggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                          | | | | |  ||   |       ||    ||    ||   ||  | | |||||| |    |||||| | | || |  || | ||| | ||||||    | || || |||||||| ||||| ||||||||||| |||||||| || || |||||||| ||||| |
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1

--------------------------gtatggaatccgactagttttctggtcttttctattgattcttggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG---------
                          | | | | |  ||   |       ||    |||   ||   ||  | | ||| || |    |||||| | |||| | ||| | ||| | ||||||  | | || || |||||||| ||||| ||||||||||| |||||||| || || |||||||| || || |         
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G003076_T02 (Zea mays), 3'ss of exon 1

--------------------------gtatggaatccgactagttttctggtcttttctattgattcttggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                          | | | | |  ||   |       ||    |||   ||   ||  | | ||| || |    |||||| | |||| | ||| | ||| | ||||||  | | || || |||||||| ||||| ||||||||||| |||||||| || || |||||||| || || |
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G055462_T01 (Zea mays), 3'ss of exon 2

--------------------------gtatggaatccgactagttttctggtcttttctattgattcttggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                          | | | | |  ||   |       ||  | ||    ||   ||  | | ||| || |    |||||| | |||| | ||| | ||| | ||||||    | || || |||||||| ||||| ||||||||||| |||||||| || || |||||||| || || |
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcacagtaatgtccgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA08G07670.1 (Glycine max), 3'ss of exon 1

--------------------------------gtatgga-atccgactagttttctggtcttttctattgattcttggggaatcgtggcgatttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                                 |||||   |  |  |      | | | || || |  || ||      |||| |  |   ||   || ||| | |||||  | || ||  | |   | || || |||||||| ||||| ||||||||||| ||||||||| |||||||  |||| |||||| 
gaatttagtgaggaacttggtagaatgtgtgcttatgggtgtttgtttccaagccagattttgtcaaaggaatc---aataatcataacttgtttattctcagGTGCAACTGGTACGAATTCAAAGGAGGGTACCTGAGTATGGGTGGACAACGCAGAAGGTTTTCCATTTGATGAATTTTGTTGTCAATGGAT

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA08G07670.2 (Glycine max), 3'ss of exon 1

--------------------------------gtatgga-atccgactagttttctggtcttttctattgattcttggggaatcgtggcgatttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG----
                                 |||||   |  |  |      | | | || || |  || ||      |||| |  |   ||   || ||| | |||||  | || ||  | |   | || || |||||||| ||||| ||||||||||| ||||||||| |||||||  |||| ||||||     
gaatttagtgaggaacttggtagaatgtgtgcttatgggtgtttgtttccaagccagattttgtcaaaggaatc---aataatcataacttgtttattctcagGTGCAACTGGTACGAATTCAAAGGAGGGTACCTGAGTATGGGTGGACAACGCAGAAGGTTTTCCATTTGATGAATTTTGTTGTCAATGGATGTAA

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA08G09640.1 (Glycine max), 3'ss of exon 1

---------------------gtatggaatccgactagttttctgg--tcttttctattgattcttggggaatcgtggcgatttctc--tcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                      | |  | | | |||    ||  ||  || |||| | | |||  ||   | |  |    || |     |   || | ||| |  | || ||  |     | || || |||||||| |||||||||||||||||||| || || || |||||| |||| ||||| |
gtacgacgccgtttccgccagatttctatttccacttccgttagggtttcctttccaattatttatgat-atttttaataatatgatgattttagGTTCAATTAGTTCGAATACAATGGAGAGTGCCGGAGTATGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTCATTGTGAATGGGG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA05G26630.1 (Glycine max), 3'ss of exon 1

---------------------------------gtatggaatccgactagttttctggt--cttttctattgattcttg-gggaatcgtggcgattt--ctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                                    |    |  |  |   ||||   |  || ||  ||||||  ||  |  ||| ||     | |         || | ||| |  | || ||  |  |  | || || || ||||| |||||||||||||||||||| || || || |||||| |||| ||||| |
gtacgacgtcgtttctgccagatttctatttccacttccgttagggtttcctttccaattactatttaattgataattatgataattgtaatattgtgatggctttagGTTCAATTAGTGCGAATACAATTGAGAGTGCCGGAATATGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTCATTGTGAATGGGG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 3'ss of exon 1

---------------------------------------------------------------------------------------gtatggaatccgactagtt-ttctggtcttttctattgattcttggggaa----tcgtggcgatt--------------tctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                                                                                        |||| |||      | |  || | || |    | ||||||   |   ||           ||||              | | | | |||| ||| |  |  | ||  |  |  | || || || ||||||||||| |||||||||||||| ||||| || |||||| | || || ||||
gtaccgtttacttgtccttctggttttgaattgggattggaattagggaatgtgttgatttggaatcggaagattaggcatttaaggatatgaaattgaggaaatagttgttgtatggagtgttgattagagaaaaaaaccctaaattgattaaagtttcatttgtttttttgtagATTCAATTGGTAAGAATACAATTGAGAGTTCCAGAATATGGCTGGACGACGCAGAAGGTCTTTCATTTTCTCAATTTCATGGTTAACGGAG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 1

-----------------------gtatg-gaatccgactagttttctggtcttttctatt---gattcttgg---ggaatcgtggcgatttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                        ||   ||| | || |  |||| | || |||| | ||    |||  |     |  ||  |  |    | | |   || | |||||  | |||||  |  |  | ||||| |||||||| ||||||||||||||||| ||||| || || |||||||| || ||||| |
tttctttatgaatcttcttttccataaacgaaacagagtgatttttttgtttttttttttttaaatttctaatctgatattatttcttaattttttaaagGTTCAACTGGTTCGGATACAATTGAGAGTCCCAGAGTATGGTTGGACCACGCAGAAGGTGTTCCACTTTCTCAATTTCCTGGTGAATGGGG

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: EDP05347 (Chlamydomonas reinhardtii), 3'ss of exon 2

gtatggaatccgactagttttctggtcttttctattgattcttggggaat-cgtggcgatttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG---------
           || ||      | |||  |||     | ||    ||    |   | || |  |  ||||| |||||||  | ||| |  || | ||||| || ||||||||||||||||| |||||||| |||||  | || || | | | ||   ||            
---------gtgagtacacgagtcgtcggttccgccaactcggaaggctcacactgagaataattgcgcagGTACAACTGCTGCGGCTGCAGCTGCGCGTGCCAGAGTATGGCTGGACCACCCAGAAGGTGTTCCACCTTCTAAACTGCTTGGTGTCTGTGCTGCGCTGCT

upper sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S295_30V6.1 (Physcomitrella patens), 3'ss of exon 1

-----------------------gtatggaatccgac------tagtttt---ctggtcttttctattgattcttggggaatcgtggcgatttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
                       || |    || | |      |||| ||   |    ||| ||| || | |  ||    |   ||   |      ||  || | ||||| || ||||| ||||| || || || ||||||||||||||||| ||||| ||||| ||| || |||||||| |||| |||||| 
ccctttcaatttgtcaatgtggcgtgtctgctctggcagcacatagtcttaaccaaagcttctctttttagttgtgaactaatatgttaaaaatgttc--agGTGCAACTAATTCGGATAGAGATGCGAGTTCCGGAGTATGGCTGGACCACTCAGAAAGTCTTTCATCTGTTGAATTTCATTGTTAATGGAT

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|169049298|gb|FE458222.1|FE458222

EST:     TCTACTACTCGCTCTCCGGCGCCTATCTCCTTGTAGCTCTCGTCGCCCTG                         ATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACG
genomic: TCTACTACTCGCTCTCCGGCGCCTATCTCCTTGTAGCTCTCGTCGCCCTGgtatggaatc ... tctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACG

EST: gi|169087158|gb|FE493105.1|FE493105

EST:     TCTACTACTCGCTCTCCGGCGCCTATCTCCTTGTAGCTCTCGTCGCCCTG                         ATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACGACG
genomic: TCTACTACTCGCTCTCCGGCGCCTATCTCCTTGTAGCTCTCGTCGCCCTGgtatggaatc ... tctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACG

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: 24 (upstream exon), 34 (downstream exon)
Score: 11

GGAGGATTGGTGGTACACTCTCAACGAGTCCAAGGCATGGCAGAATCGATTCTACTACTCGCTCTCCGGCGCCTATCTCCTTGTAGCTCTCGTCGCCCTGgtatggaatc ... tctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG

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atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

agttttctggtcttttctattgattcttggggaatcgtggcgatttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG