ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG

Basic information

species	Physcomitrella patens
transcript	PP1S102_107V6.1
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os02g44630.2 (Oryza sativa), 3'ss of exon 3

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacg-acataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                              |||  |||   | || |    ||  | || | | |||       | ||       |          ||||   |        |        | |||||            || | |||||||| || || ||||| || || ||||| ||||| ||  |||||||||| ||||||||||| |||||||| ||||| ||  | || || ||||
--------------------------------------------------------------tttgctcaagaaattgactgtatgcgtatagttactggaagtatatatgggttttttgtgtgttgcataacgtatttctgtcctttgttggtgaaaac------------agATCCTTGCCCCACTGCCAATTGGTTTTGCGGTGTTCCTGGTCCACCTGGCCACCATCCCCATCACCGGTACTGGCATCAACCCAGCCAGGAGCCTTGGCG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA08G01860.1 (Glycine max), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                       |||  | |   || |    | | |       | | |   |  |  |||| ||||  |    | | ||| |||    |    ||| |   ||  |||       |||  |  |  ||   | | || ||                ||| || |  | || || ||||| |||||||| || |||||  |||| || ||||| |||||||||||||| ||||||||||||||||| ||  | ||||| || |
-----------------------gtatgtattctttcccactacaat------attgcttattcattccactaatttggtt---tataaatggctat--attctgactttgtaat-taatgtggttaatgtatgatgctatgatataataa----------------ttgtagATTTTGGCTCCACTTCCCATTGGATTTGCTGTGTTCTTGGTCCACTTGGCTACCATTCCCATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTCGGAG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA18G03330.1 (Glycine max), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaa-ataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                             || |   ||   |   ||| | || |||||   | |        | |||  |   ||  || | |  ||   |     |   |  ||  |||| |               ||| |  | || ||  | || ||||| ||||| |||||  |||| || |||||||| || || ||||| |||||||| |||||||||||||||||||| || |
-------------------------------------------------------------gtatgtgcatgcaaaaaattaaat-tgaataagttcgtgtatatatatattattcatgtaactgatgattttatgtttttgtatgaatgaaatgat--------------cagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCCACAATCCCAATCACTGGAACTGGTATTAACCCTGCACGTAGTCTCGGTG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA14G06680.3 (Glycine max), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                                  ||   |||||  || | || | |||| |    | |  | | | ||||||| |  | | |  || ||  |||   ||          | || |           | || |  | || ||  | || ||||| ||||| |||||  |||| || ||||| ||||| ||||||||||||||||| || |||||||| |||||||| |   
---------------------------------------------------------------ggaatttgtgattagatgatatgtaaattac-atagccatcaaaaaaaaaaaaaaccatttattatgaactaaatctaattgtgtgggttgaatatatga------gTAGATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTTCACTTGGCAACCATCCCCATCACCGGAACTGGTATCAACCCTGCTCGTAGTCTTG---

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA14G06680.1 (Glycine max), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                                  ||   |||||  || | || | |||| |    | |  | | | ||||||| |  | | |  || ||  |||   ||          | || |           | || |  | || ||  | || ||||| ||||| |||||  |||| || ||||| ||||| ||||||||||||||||| || |||||||| |||||||| || |
------------------------------------------------------------------atttgtgattagatgatatgtaaattac-atagccatcaaaaaaaaaaaaaaccatttattatgaactaaatctaattgtgtgggttgaatatatga------gtagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTTCACTTGGCAACCATCCCCATCACCGGAACTGGTATCAACCCTGCTCGTAGTCTTGGTG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA01G42950.1 (Glycine max), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                           || | |  | ||  || || | | |  || | || |  |          |       |    | ||   |  || ||  ||           ||||||          ||| || |  | ||||||||||| || || || || |||||| |||| || ||||| |||||||| ||||| ||||||||||||||||| ||  | ||||| || |
-----------------------------------------------------------gtctctacttacctatatatttacacttggaatgtttttttttttttttttgtgtg-tgtggacaa---tgtaataacttggtgtttgtgtgataaaa----------ttgtagATTTTGGCCCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCTACCATTCCTATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA05G37730.1 (Glycine max), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
||||| |  |||  ||| |  |    || | |||| |  |      ||  |   |  || ||  |||| | ||| |  ||    ||||| ||  || |    | |   | ||   || |   ||              ||| | || ||                  ||| || |  | || || ||||| || ||||| || |||||  |||| || ||||| |||||||||||||| ||||||||||||||||| ||  | ||||| || |
gtatgctatactctttc-cttttccccactacaat-attgcattcattcca---ttaatttggcttataaatgagtatat--attctgactt--tgttattaatgtggttaatttatgatggta--------------tgatataataa------------------ttgtagATTTTGGCTCCACTTCCCATCGGATTTGCTGTGTTCTTGGTCCACTTGGCTACCATTCCCATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTCGGAG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                          |   | | || ||  ||| |   | |  |  |    |  | |  | |   |       |    |  |  ||  || ||  ||           ||||||          ||| || |  | || |||||||| || || || || |||||| |||| || ||||| |||||||| ||||| ||||||||||||||||| ||  | ||||| || |
----------------------------------------------------------tacatataattacatatt-acctatacatttacacttaattagaatgttttttg----tgtggactattatgtaataatgtggtgtttgtgtgataaaa----------ttgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv02s0025g03390.t01 (Vitis vinifera), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataa-aaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                                || ||  || |  | | |||    | || |   |       |  | || || |   | | |||  |  |   | |  || | |||    | || |          ||||| |  | ||||| || || ||||| || ||||||||  |||| || ||||||||||| |||||||| ||||||||||||||||| ||  | ||||| || |
----------------------------------------------------------------ttttctttggt--agttagagggtagttaccattactagaaatgtgaacaagtcccatacaaatcttgagttaccctaaccgaaattcttgaatata--------tgcagATTTTGGCCCCCCTCCCCATTGGGTTTGCAGTGTTCTTGGTTCACTTGGCCACCATCCCCATCACAGGAACTGGCATTAACCCAGCCAGGAGTCTTGGAG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaact-cttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                                    || |    |  |||  | | ||    | |||| |     ||  |  | |  ||||   |    ||||   | | ||       ||     || | | |   ||||| |  | || ||||| || ||||| || ||||||||  |||| ||| |||| ||||| |||||||||||||| ||||| ||||||||  | |||||||| |
-------------------------------------------------------------------ccattttcctc-tcatttttcaaccattcctgatggt---atttattattgcaaatgggatctgaaaa---taacacgccctttatttttcctgcgttgaactgcagATTTTGGCTCCTCTCCCCATTGGGTTTGCAGTGTTCTTGGTTCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTGGGGG

upper sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv15s0046g02410.t01 (Vitis vinifera), 3'ss of exon 2

gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG
                                                        || ||    | || ||       |||  | | ||      ||||  |    || |  ||    |  | ||||| | | |  ||  |         |    ||||         |||| |  | || ||||| || ||||| || ||||||||  |||| ||| |||| ||||| |||||||||||||| ||||| ||||||||  | ||||| || |
--------------------------------------------------------gacgtcccctttcgctc------tcatttttcaaccatacctgagaat--tattacgaatgggatctgaaaatgacacaccctttattttccctgaattgaact---------gcagATTTTGGCTCCTCTCCCGATTGGGTTTGCAGTGTTCTTGGTTCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGG

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|161982343|gb|EE296257.1|EE296257

EST:     TGTTCTCCGCCACCGACGCCAAGCGCAGCGCTCGTGACTCTCATGTGCCG                         GTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGT
genomic: TGTTCTCCGCCACCGACGCCAAGCGCAGCGCTCGTGACTCTCATGTGCCGgtatgtttca ... cgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGT

EST: gi|100411113|gb|BY956329.1|BY956329

EST:     TGTTCTCCGCCACCGACGCCAAGCGCAGCGCTCGTGACTCTCATGTGCCG                         GTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCC
genomic: TGTTCTCCGCCACCGACGCCAAGCGCAGCGCTCGTGACTCTCATGTGCCGgtatgtttca ... cgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCC

EST: gi|100446499|gb|CJ970798.1|CJ970798

EST:     TGTTCTCCGCCACCGACGCCNAGCGCAGCGCTCGTGACTCTCATGTGCCG                         GTGCTTGCCCCTCTTCCTATTGGATNCGCAGTGTTTCTGGTACATTTGGCC
genomic: TGTTCTCCGCCACCGACGCCAAGCGCAGCGCTCGTGACTCTCATGTGCCGgtatgtttca ... cgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCC

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: 35 (upstream exon), 35 (downstream exon)
Score: 284

AGATGGATTGGGAGCAGAGATTGTGGGAACGTTCGTGTTGGTCTACACTGTGTTCTCCGCCACCGACGCCAAGCGCAGCGCTCGTGACTCTCATGTGCCGgtatgtttca ... cgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG

<

<

<

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

aaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG