ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtaagcagttgttcttctaaggctgactacaacttggatgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATGTTGATATTTGTATTTAGTGCATGGTCGTGTGCGGCAGTAGGCAAAACAG

Basic information

species	Selaginella moellendorffii
transcript	EFJ14101
intron #	10
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: EFJ14101 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 11

----------------------------gtaagcagttgttcttctaaggctgactacaa-cttggat----gctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATGTTGATATTTGTATTTAGTGCATGGTCGTGTGCGGCAGTAGGCAAAACAG
                             | |     ||| ||| |||     |  |    ||||  |    | || ||||||||||| ||||||||||| |||||||| |||||  | || ||  ||||| | |||||  | |||||||||||| | ||| | || || |||| ||| |
gtattttattacttagacacgcaaaatacttactttctgtgcttataacatatataatggtcttgtgtaatggattgcagGTTGACATAGCAATCCCAGAGGTTTTTGTTGGTGGTTTACTTGGTTCAATGCTTATATTCCTGTTTAGTGCATGGGCTTGTTCTGCTGTTGGCAGAACTG

upper sequence: EFJ14101 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: PP1S105_42V6.2 (Physcomitrella patens), 3'ss of exon 12

-----------------------------------------------------------------------------------------------------------gtaagcagttgttcttctaaggctgactacaacttggatgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATGTTGATATTTGTATTTAGTGCATGGTCGTGTGCGGCAGTAGGCAAAACAG
                                                                                                           ||  |    |||  |  |     |    |    |||  ||  ||||||| || ||||||||||||||||| |||||||| ||| || | ||  | ||| | || | | | || ||||| ||| | ||||| || || |||  |||||
gtatgacaaatttatgctcctgcaaccagggttcaatcactgcattagctgggaagcaaaggttttcaagattggatttatgcataagtatgtaggaattgcaaccggtgggggcctgtggtaatcgaaatcctcattgtttg--tgaattcagGTGGATATTGCAATCCCAGAAGTATTTGTAGGAGGCTTGTTGGGGTCTATGCTTATTTATCTGTTCAGTGCCTGGGCATGTGCTGCTGTGGGCCGAACAG

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|169078438|gb|FE488313.1|FE488313

EST:     GCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAG                         GTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG
genomic: GCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAGgtaagcagtt ... atgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG

EST: gi|169099967|gb|FE503455.1|FE503455

EST:     GCGCTTACATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAG                         GTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG
genomic: GCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAGgtaagcagtt ... atgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG

EST: gi|169054592|gb|FE462676.1|FE462676

EST:     GCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAG                         GTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG
genomic: GCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAGgtaagcagtt ... atgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG

EST: gi|169078439|gb|FE488314.1|FE488314

EST:     GCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAG                         GTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG
genomic: GCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAGgtaagcagtt ... atgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATG

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: 32 (upstream exon), 25 (downstream exon)
Score: 11

CAAGGGATTTGCTATAGGCTCCGCTGCGTTAGCATCTTTTCTTCTGTTCAGCGCTTATATGGACGAAGTATCGTCTTTTACTCAGATTAGCTTTACTGAGgtaagcagtt ... atgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATGTTGATATTTGTATTTAGTGCATGGTCGTGTGCGGCAGTAGGCAAAACAG

<

<

<

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gtaagcagttgttcttctaaggctgactacaacttggatgctttcagGTTGACATTGCAATCCCAGAAGTTTTTGTAGGTGGCCTGCTAGGAGCAATGTTGATATTTGTATTTAGTGCATGGTCGTGTGCGGCAGTAGGCAAAACAG