ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATGGATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgccttctttgtgtatcatggttgcttattttgtgacttttgctgtcgaaacgggaatactactgcatatataatagtgaatcgcaattgtact...

Basic information

species	Zea mays
transcript	GRMZM5G891739_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G891739_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g11960.3 (Oryza sativa), 5'ss of exon 2

TACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATGGATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgccttctttgtgtatcatggttgcttattttgtgacttttgctgtcgaaacg--ggaatactactgcatatataatagtgaatcgcaa--ttgtact-
|| |||||||||||||| | |||||| ||| |  |||||||    ||||| ||||||||||||  ||| |||||||| ||||| ||||||||||| |||||||||  ||||||   || |  | || |||    |||||||||||  | |||  ||  |  ||   | |    ||| |  |  | ||      ||  | ||    
TATACCGAGGTGAGGGGGAGGGTCACCGGCCTCGCTCCGGGCCTCCATGGCTTCCACATCCACTCCTTTGGCGACACCACCAACGGCTGCAACTCTACCGgttcgttgccttcc--gtttcccttgcttg---gttttgtgacttaggttgtgaaattgatgggggatttggccatttggagcactgctcgataagatcgtgtat

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|37381407|gb|CF627586.1|CF627586

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGG                         GTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGAC
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACC-Ggttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGAC

EST: gi|4804563|gb|AI665586.2|AI665586

EST:     ACTACCAATGGCTGCAACTCAACCG                         GGCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGATG
genomic: ACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|67039156|gb|CO465411.1|CO465411

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GGCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGATG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|211127614|gb|FL312983.1|FL312983

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GGCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGATG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|211400090|gb|FL367035.1|FL367035

EST:     ATACCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|211279556|gb|FL330408.1|FL330408

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|211437458|gb|FL316488.1|FL316488

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|78027318|gb|DV495705.1|DV495705

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GGCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGATG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|211462831|gb|FL343053.1|FL343053

EST:     ATWCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GGCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGATG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|47962526|gb|CN845235.1|CN845235

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|211383533|gb|FL339775.1|FL339775

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

EST: gi|45568100|gb|CK985902.1|CK985902

EST:     ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCG                         GTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG
genomic: ATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACG

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), 47 (downstream exon)
Score: 39

TACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATGGATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAACCGgttcgccgcc ... ggcttcatagGTCCCCATTTTAACCCTCATAATAAACCCCATGGAGCTCCATTTGACGACGAACGACATTTGGGCGACCTGGGAAATATAGTAGCCAATGAAGATG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 111

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 120