ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GACGACGCTGATTGCGCTCCAGGACATCTCCCTTGAGAAGATCCTTGATGACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgataatatctgttccttgcagcagcagcagcctctgttctgccaatgcctgaaatgctagtgacaccatgaatctgtgtgtctgtcttgactcccag

Basic information

species	Zea mays
transcript	GRMZM2G423337_T03
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G423337_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os03g43930.2 (Oryza sativa), 5'ss of exon 17

GACGACGCTGATTGCGCTCCAGGACATCTCCCTTGAGAAGATCCTTGATGACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgataatatctgttccttgcagcagcagcagcctctgttctgccaatgcctgaaatgctagtgacaccatgaatctgtgtgtctgtcttgactcccag
||||||||||||||| |||||||||||||| || ||||||||||||||||| |||||| ||||||| || || || |||| ||| ||||| ||||| ||||||||   ||     |||||||   |     |  ||||| ||  |   |  |  |||  ||||| || ||   |             |||| |  |||||   
GACGACGCTGATTGCTCTCCAGGACATCTCGCTCGAGAAGATCCTTGATGATGATGGCCGGAAGGCACTATGTACAGAGTTCCCCAAGATCATGCAGCAGgtatggacta----ttgttcct---aatgctacaagcctttggacaaaccct-tctgtgatgcttgtaaccgaacag---cacaaaactgtttccactccag-

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|60347903|gb|DN214876.1|DN214876

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGACGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|76912511|gb|DV164768.1|DV164768

EST:     CGATGGCAGGAAGGCGCTCTGCACCGAGTACCCCTAAGATTATGCAAAAG                         GGCTTCGCGTACCTCCCCGGTG
genomic: CGATGGCAGGAAGGCGCTCTGCACCGAGTACCC-TAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTG

EST: gi|211342627|gb|FL344349.1|FL344349

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|71764261|gb|DR962198.1|DR962198

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|71298034|gb|DR784986.1|DR784986

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|4966813|gb|AI691669.1|AI691669

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|88756793|gb|DY540934.1|DY540934

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|60400862|gb|DN233669.1|DN233669

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|71298032|gb|DR784985.1|DR784985

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|32847407|gb|CD987088.1|CD987088

EST:     CGATGGCAGGAAGGCGCTCTGCACCGAGGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTA
genomic: CGATGGCAGGAAGGCGCTCTGCACCGAG-TACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTA

EST: gi|60401652|gb|DN234459.1|DN234459

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|60396119|gb|DN228988.1|DN228988

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|60354408|gb|DN221381.1|DN221381

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|78116184|gb|DV534571.1|DV534571

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

EST: gi|4804250|gb|AI666116.1|AI666116

EST:     ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAG                         GGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG
genomic: ACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCG

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: 249

GACGACGCTGATTGCGCTCCAGGACATCTCCCTTGAGAAGATCCTTGATGACGATGGCAGGAAGGCGCTCTGCACCGAGTACCCTAAGATTATGCAACAGgtatgcgata ... tgactcccagGGCTTCGCGTACCTCCCCGGTGGCGTGTGTGTGTCGAGCATGGGGCGGCCGGTGTCGTACGAGCAGGCGGTGGCGTGGAAGGTCCTGAGCGACGACGACA

Block sizes: 45 (upstream exon), 47 (downstream exon)
Score: 37

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 103