ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATACATTGCAGTACCCTGAGGCTTATACGTATAATGGGATAGTAGTGGTTCGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggttggtctgttctcgtcatgtgtaaacacatgaataaattttcatcatttacaaggaaatgttagttctactggtaatcataatcttttgtcag

Basic information

species	Zea mays
transcript	GRMZM2G068212_T01
intron #	14
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G068212_T01 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os09g06499.1 (Oryza sativa), 5'ss of exon 15

ATACATTGCAGTACCCTGAGGCTTATACGTATAATGGGATAGTAGTGGTTCGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggttggtctgttctcgtcatgtgtaaac-acatgaataaattttcatcat-ttacaaggaaatgttagttctactggtaatcataatcttttgtcag
||| |||||| ||||||||||||||||| || || |||||||| || ||||||||||||||||| ||||||||||||||||| || ||||| |||||||||| |||   ||  | | || ||   |||   |       | |  || ||||  || |      | |   || | | | |  || | ||  |  ||  || ||||
ATAGATTGCAATACCCTGAGGCTTATACCTACAACGGGATAGTTGTTGTTCGAATTGATGCACCTATCTACTTTGCCAACATAAGTTACATAAAAGACAGgtggat--att--ttttttatctgtatgaacagtttgtgttatcaattttttttcttaccctgatgtcctgatggatgttttgttgattgtg-tcccttatcag

upper sequence: GRMZM2G068212_T01 (Zea mays), 5'ss of exon 14
lower sequence: AT3G12520.2 (Arabidopsis thaliana), 5'ss of exon 15

ATACATTGCAGTACCCTGAGGCTTATACGTATAATGGGATAGTAGTGGTTCGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggttggtctgttctcgtcatgtgtaaacacatgaataaattttcatcatttacaaggaaatgttagttctactggtaatcataatcttttgtcag
| |     ||||| || ||||| || || || || ||||| ||  | |||||||| ||||| || || || ||||||||||| ||||||||||| |||||||  | | |    |  ||||  | | ||  |      |||| |  |  |  |  ||  |||    ||    |  |    | | |||   |            
ACATGAAACAGTATCCAGAGGCATACACTTACAACGGGATTGTGATTGTTCGAATCGATGCTCCCATTTATTTTGCCAACATAAGCTACATCAAGGACAGgtgaaattgacatttggttcctgacttgctttctgttatga-tccacataaagaatcaacacaacaacaccatgtt---tcgaaattgcag-----------

upper sequence: GRMZM2G068212_T01 (Zea mays), 5'ss of exon 14
lower sequence: EFJ29944 (Selaginella moellendorffii), 5'ss of exon 14

ATACATTGCAGTACCCTGAGGCTTATACGTATAATGGGATAGTAGTGGTTCGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggttggtctgttctcgtcatgtgtaaacacatgaataaattttcatcatttacaaggaaatgttagttctactggtaatcataatcttttgtcag
|       |||||  | || || || || ||  ||||||| ||  | || || |||||||| ||||| ||||| || ||||| |||| ||||||||||||||  |     |  ||| ||    |  |||  || |   |   |   ||  | ||| ||         |    |  || || | |                  
ACGTGAGACAGTATGCAGACGCGTACACATACCATGGGATCGTCATTGTACGTATTGATGCCCCGATGTACTTCGCAAACATCAGCTTCATCAAAGACAGgtc-accctctcctctctttatcttttgttaaagcgtgtacgtgctttcccttcacttttgt-----ttcacgcacttcttgcag-----------------

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|76912513|gb|DV164769.1|DV164769

EST:     CGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAG                         GTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT
genomic: CGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggt ... cttttgtcagGTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT

EST: gi|32834247|gb|CD973925.1|CD973925

EST:     CGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAG                         GTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT
genomic: CGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggt ... cttttgtcagGTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT

EST: gi|32825639|gb|CD965359.1|CD965359

EST:     GATCTACTTTGCCAACATTAGCTACATCAAAGACAG                         GTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT
genomic: GATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggt ... cttttgtcagGTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT

EST: gi|32832081|gb|CD971759.1|CD971759

EST:     CGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAG                         GTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT
genomic: CGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggt ... cttttgtcagGTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGT

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: 80

ATACATTGCAGTACCCTGAGGCTTATACGTATAATGGGATAGTAGTGGTTCGAATTGATGCACCGATCTACTTTGCCAACATTAGCTACATCAAAGACAGgtagattggt ... cttttgtcagGTTGCGTGAGTATGAGCTCAATCTTCCAAGTTCAAACAAGGGACTTGATGTTGGAAGGGTGTATTTTGTGATCCTCGAGATGTCCC

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 117

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 127