ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGCGGGACGTTAAGCGACTGGAGCACGTCGGTGCTCATCTTCGGGATCTGGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggacaattgcctgcctgcttgctttctgttatgctgctgtgaatgtgatttggaattcgcttgctaatttgtaattcttgcttccactctggctgcag

Basic information

species	Zea mays
transcript	GRMZM2G091245_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G091245_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os08g25700.1 (Oryza sativa), 5'ss of exon 1

TGGCGGGACGTTAAGCGACTGGAGCACGTCGGTGCTCATCTTCGGGATCTGGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggacaattgcctgcctgcttgctttctgttatgctgctgtgaatgtgatttggaattcgcttgctaatttgt-aattcttgcttccactctggctgcag---
 || ||||   | ||||||||||  ||||||||||| |||||||| ||||||||||| |||||||||||| ||||||  |||||||| |||||||| || |||||| || |   | |   ||||||| || |||   |||   ||||||  || | |    | |  |   | |  || |  || | |   || | | ||    |   
AGGAGGGAGTCTCAGCGACTGGACGACGTCGGTGCTTATCTTCGGAATCTGGGCGGGGCTCATGTACTACATCTTCCAACTCGCGCCCAACCAGACGCCGgtacgg-acgaacacgt---tgcttgccttttgt---gcttgcgtgaatccgaatcgtttcttggatagcactcagtgagatcctaccgacattgttgcgaatgttg

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|78122780|gb|DV541164.1|DV541164

EST:     GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCA                         TACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGAGACGAT
genomic: GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT

EST: gi|50335672|gb|CO530798.1|CO530798

EST:     GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCA                         TACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT
genomic: GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT

EST: gi|211147876|gb|FL312570.1|FL312570

EST:     GCGGACTCATGGTACTAACGTCTTCCTGGCTCGCGC-TAACCAGACACCA                         TACCGAGACACATACTTTCTTGCAGAAACT
genomic: G-GGACTCATG-TACTA-CGTCTTCCTG-CTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTT-CTTGCAGAAACT

EST: gi|76294303|gb|DV033871.1|DV033871

EST:     GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCA                         TACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT
genomic: GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT

EST: gi|149059933|gb|EE157060.2|EE157060

EST:     GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCA                         TACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT
genomic: GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT

EST: gi|94479869|gb|EB708827.1|EB708827

EST:     GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCA                         TACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT
genomic: GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT

EST: gi|78112131|gb|DV530527.1|DV530527

EST:     GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCA                         TACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT
genomic: GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT

EST: gi|211197445|gb|FL310845.1|FL310845

EST:     GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCA                         TACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT
genomic: GGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGAT

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: 49 (upstream exon), 49 (downstream exon)
Score: 20

TGGCGGGACGTTAAGCGACTGGAGCACGTCGGTGCTCATCTTCGGGATCTGGGCGGGACTCATGTACTACGTCTTCCTGCTCGCGCCTAACCAGACACCAgtacgggaca ... ctggctgcagTACCGAGACACATACTTCTTGCAGAAACTTTTAAATCTGAAGGGCGACGATGGCTTTCGAATGAATGATGTTCTTGTTTCTCTATGGTACATTATGGGCC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 51

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 26