ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtgcatactactgaaagtgactgtattacactgtagcacttgtaagattgcattgaagatttgctgattcttttcactataaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACTTCCATGTCGCCACCAGCAGTCCAACAAGTTATTTCTGCTATTAAAGTTA

Basic information

species	Zea mays
transcript	GRMZM2G152888_T01
intron #	8
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G152888_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 8

gtgcatactactgaaagtgactgtattacactgtagcacttgtaagattgcattgaagatttgctgattcttttcactataaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACTTCCATGTCGCCACCAGCAGTCCAACAAGTTATTTCTGCTATTAAAGTTA
                ||   | | | | |      |  |     | ||| |||||| |||| |||||||   |  ||  || | ||||||||||||||||||||| |||| ||| || || || ||| | |||||||| |||||||| ||||||||||| |||||||||||||| || |||||||| |
----------------gtacatct-tcagagcacttctttcagttgcttgaattgaaaatttactgattcaccttgcttgaactctcagGAGATAATTCAGCACCTGAAGCTTAGCTGCCCAGCGCATATTTATGCTACCTCCATGTCACCACCAGCAGTACAACAAGTTATTTCAGCCATTAAAGTGA

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|71306654|gb|DR789487.1|DR789487

EST:     TTTTACCCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAG                         GAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT
genomic: TTTTA-CCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAGgtgcatacta ... taaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT

EST: gi|78078704|gb|DV507116.1|DV507116

EST:     TTTGGATCATGTGGTGGATATATTGCCGCATCAAAG                         GAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT
genomic: TTTGGATCATGTGGTGGATATATTGCCGCATCAAAGgtgcatacta ... taaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT

EST: gi|32835583|gb|CD975261.1|CD975261

EST:     CTTTTACCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAG                         GAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT
genomic: CTTTTACCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAGgtgcatacta ... taaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT

EST: gi|76011503|gb|DT938673.1|DT938673

EST:     CTTTTACCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAG                         GAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT
genomic: CTTTTACCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAGgtgcatacta ... taaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACT

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 4 RNA-Seq libraries.

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 146

TTGTGAGCTCCTTGGGGTTGACCCAGCTGATGTAGATATAATGATGGGTACTTTTACCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAGgtgcatacta ... taaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACTTCCATGTCGCCACCAGCAGTCCAACAAGTTATTTCTGCTATTAAAGTTA

Block sizes: 47 (upstream exon), 44 (downstream exon)
Score: 155

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 192

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 166

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

agcacttgtaagattgcattgaagatttgctgattcttttcactataaatttcagGAGATAATTCAGCACCTTAAGCATAGTTGTCCGGCCCATCTGTATGCTACTTCCATGTCGCCACCAGCAGTCCAACAAGTTATTTCTGCTATTAAAGTTA