ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGCATCAGCCAACCGAGCTTGAGTGAGAGAAGCTTTCTGAAGAGTGAAAGCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaacaaccacatcagttctatacttgcttcctcaattatttgatgtagtgaactgatattttaaattaatctgtacttttccag

Basic information

species	Zea mays
transcript	GRMZM2G062761_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G062761_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 5'ss of exon 10

TGGCATCAGCCAACCGAGCTTGAGTGAGAGAAGCTTTCTGAAGAGTGAAAGCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaa-tacaacaac-cacatcagttctatacttgcttcctcaattatttgatgtagtgaactgatattttaaat----taatctgt--acttttccag--------------------------------------------------
 ||||| ||| |||||  | ||||||   | |||||  |||||||||||||||| || |||||||||||||| ||||||||||| ||||| | || |||||||| |  |  | | ||   | |  | | || ||      |  ||  |   ||| | | |  || |   || ||    || ||| |  | ||||  |                                                   
CGGCATTAGCAAACCGCTCATGAGTGCTCGGAGCTTGTTGAAGAGTGAAAGCATAAGCGCTTCCAAGTGTATTGGTGAAAAACCAAAGCAAGACAGAGATgtaagtgtagtatctcattcctgcaccacacatgtcaggacggttcctgtttgtcgaggaaggaaacaatatatgttctagtctatctaattttttatttacgtaagatttaaaataaaattttgacataagatagtctatttctcag

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|9953907|gb|BE640490.1|BE640490

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|71444394|gb|DR825444.1|DR825444

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|211233386|gb|FL465913.1|FL465913

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|71326217|gb|DR799803.1|DR799803

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|78179341|gb|DV549714.1|DV549714

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|71430391|gb|DR811441.1|DR811441

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|148942758|gb|EC887784.2|EC887784

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|32934687|gb|CF039499.1|CF039499

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|6827043|gb|AW330686.1|AW330686

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|6827010|gb|AW330653.1|AW330653

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAANCCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|6952802|gb|AW424870.1|AW424870

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

EST: gi|76018132|gb|DT945302.1|DT945302

EST:     GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGAT                         GGAGAATCTGTTTTAGAGAGCGTGGATGAACCAGTCGATGATTTGTCGAAG
genomic: GCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAG

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: 46 (upstream exon), 44 (downstream exon)
Score: 62

TGGCATCAGCCAACCGAGCTTGAGTGAGAGAAGCTTTCTGAAGAGTGAAAGCATCAGTGCTTCCAAGTGTATAGGTGAAAAACCGAAGCATGTCAAAGATgtaatacaac ... acttttccagGGAGAATCTGTTTTAGAGAGCGTGGATGAAACAGTCGATGATTTGTCGAAGAAAATTCCTCAACTGAAAACCTGATTTTTCTCAAGTTCACTGGAGCAAT

Block sizes: 46 (upstream exon), 43 (downstream exon)
Score: 35

Block sizes: 49 (upstream exon), 43 (downstream exon)
Score: 51