ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACTGAAAACAACTTTTGTTCGACGAGCATCAGAGTTTTTGCGGAACTACTTCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttcatagcttcatttttgaaagtaaatatttcctttcccatttgagatgaccgacagagttcacttttaactgaaagcag

Basic information

species	Zea mays
transcript	GRMZM2G099056_T01
intron #	11
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 11

ACTGAAAACAACTTTTGTTCGACGAGCATCAGAGTTTTTGCGGAACTACTTCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttcatagcttcatttttgaaagtaaatatttcctttcccattt--------gagatgaccgacagagttcacttttaactgaaagcag
|||||| ||||||||||||||||| |||||||| |||||| ||||||||||||| || ||||| ||||||||||| |||||||||||||||||||| |||||||||||| ||   |||| ||   || || |  || | |||   |||        ||||||||  | ||||||| |||||||||||||| ||
ACTGAAGACAACTTTTGTTCGACGCGCATCAGAATTTTTGAGGAACTACTTCTCTAGCTTGGTGGACTTCATGATAAGTGACAAAAGCTACTTTTCTCAGgtttcttcacagacccattcttcgcagcaatttattaccttctatttttgttttctgagatgactcagagagttctcttttaactgaaagtag

upper sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA17G36540.1 (Glycine max), 5'ss of exon 11

ACTGAAAACAACTTTTGTTCGACGAGCATCAGAGTTTTTGCGGAACTACTTCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttc-atagcttcatttttgaaagtaaatatttcctttcccatttgagatgaccgacagagttcacttt------taactgaaagcag
| | ||| | ||||||||  |  |||| || || || ||| | || || ||  | |||||||| ||||||||||| ||||| ||||| |||||||| ||||| | |||  ||  ||  |||| |||| |    |  || | | |  |||||    |   |  |   |||||||      |  ||   | |||
ATTAAAATCTACTTTTGTCAGGAGAGCCTCTGAATTCTTGAGAAATTATTTTGCTAGTTTGGTGGACTTCATGATAAGTGATAAAAGTTACTTTTCTCAGgtattttctgtaaatttgttttagaaacttttgaagtcttctgcattttgaacaaatttattggtatcactttgtcttcttgctctgaacag

upper sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA09G18840.1 (Glycine max), 5'ss of exon 11

ACTGAAAACAACTTTTGTTCGACGAGCATCAGAGTTTTTGCGGAACTACTTCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttc-atagcttcatttttgaaagtaaatattt-----cctttcccatttgagatgaccgacagagttcacttttaa------ctgaaagcag
| | ||| | ||||||||  |  |||| || || || ||| | || || ||  | |||||||| ||||||||||| ||||| ||||| |||||||| ||||| | |||  ||  ||  |||| |||     |  |||     | |||    |||||    |   |  |   ||||||||        ||   | |||
ATTAAAATCTACTTTTGTCAGGAGAGCCTCTGAATTCTTGAGAAATTATTTTGCTAGTTTGGTGGACTTCATGATAAGTGATAAAAGTTACTTTTCTCAGgtattttctgtaaatttgttttagaattgtcacttttgaggacttttgaattttgaaggaatttattggtatcactttttcttcttcctctgaacag

upper sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 11
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 11

ACTGAAAACAACTTTTGTTCGACGAGCATCAGAGTTTTTGCGGAACTACTTCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttc---ttcatagcttcatttttgaaagtaaa-tatttcctttcccatttgagatgaccgacagagttcacttttaactgaaagcag
| | ||| | ||||||||  |  |||| || ||||| ||| | ||||||||  | ||||||||||| |||||| |||| ||||||||||||||||| |||||      || |||   |  | ||  ||  | || | |     ||   |||    ||      ||  |     ||| ||| |       
ATTAAAAGCTACTTTTGTAAGGAGAGCTTCGGAGTTCTTGAGAAACTACTTTGCTAGTTTGGTAGATTTCATGGTCAGCGACAAAAGCTACTTTTCTCAGgtactaattttataaaattctattccaatatgaagtctagtgattataattctgaatatttatcaccgcatcttttaaacag-------

upper sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 11
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 5'ss of exon 11

ACTGAAAACAACTTTTGTTCGACGAGCATCAGAGTTTTTGCGGAACTACTTCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgt-----ttcttcatagcttcatttttgaaagtaaatatttcctttcccatttgagatgaccgacagagttcacttttaactgaaagcag
| | ||| | ||||||||  |  |||| |||||||| ||| |  |||||||  | ||| ||||||| |||| | |||||||||||||||||||||| |||||     || |  | |  | |||  |   ||    |  | |  |  |  |||    ||      ||  |     ||| ||| |       
ATTAAAAGCTACTTTTGTAAGGAGAGCTTCAGAGTTCTTGAGAGACTACTTTGCTAGTCTGGTAGATTTCAAGTTCAGTGACAAAAGCTACTTTTCTCAGgtactacttttataaaattccatcgtaccaatatgaagtctagtgactaattctgaatatttatcaccgcatcttttaaacag-------

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|31611730|gb|CD568352.1|CD568352

EST:     TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAG                         CGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGG
genomic: TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttcat ... ctgaaagcagCGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGG

EST: gi|60357615|gb|DN224588.1|DN224588

EST:     TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAG                         CGTGGACAATTGAAGCGGCCTGATCATG
genomic: TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttcat ... ctgaaagcagCGTGGACAATTGAAGCGGCCTGATCATG

EST: gi|30087192|gb|CB885400.1|CB885400

EST:     TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAG                         CGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGG
genomic: TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttcat ... ctgaaagcagCGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGG

EST: gi|28568877|gb|CB280752.1|CB280752

EST:     TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAG                         CGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGG
genomic: TCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttcat ... ctgaaagcagCGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGG

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: 201

ACTGAAAACAACTTTTGTTCGACGAGCATCAGAGTTTTTGCGGAACTACTTCTCCAGTTTGGTAGACTTCATGATCAGTGACAAAAGCTACTTTTCACAGgtttcttcat ... ctgaaagcagCGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGGACATATGCCCGACTTCTGCAGCACTTAAAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 101

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