ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGGACGGGAGGGAGATCAGATGGTCGTCACGCCGCTGGGCGCCGGCAGCGAGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacctcattccccattctcaacccccctcctcccactccccttgcaaacccctacatgtttccgattcgccaccaccgcagctgatgaatgctcccccctctctctgtaatgcggctag

Basic information

species	Zea mays
transcript	GRMZM2G422649_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G422649_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os03g63590.1 (Oryza sativa), 5'ss of exon 1

CGGACGGGAGGGAGATCAGATGGTCGTCACGCCGCTGGGCGCCGGCAGCGAGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacctcattcccc-attctcaacccccctcctcccactccccttgcaaacccctacatgtttccgattcgccaccaccgcagctgatgaatgctcccccctctctctgtaatgcggctag
||| ||||||||||| ||| |  || |||| |||||||||||||||| |||||| ||||| ||||||||| ||||| ||||||||||||||||||||||||| |||| |  || |||| | |||   || ||   | |   || ||  |||   |   |  ||| |    | |  |  |    |    | |||  || |      |   |  |      || |||
CGGGCGGGAGGGAGACCAGCTCATCATCACTCCGCTGGGCGCCGGCAACGAGGTCGGCCGCTCCTGCGTCTACATGTCATTCAAGGGCCGCACCGTCCTCgtgagcatccaatccccccactctttccctccaaaccctagcttccactgctttcttttttatgat----aatttctgcttttgtttgtcatg--tggtgtggtgtggtttggattcttggatag

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|91876870|gb|EB406827.1|EB406827

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|31350152|gb|CD434509.1|CD434509

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|211185208|gb|FL070464.1|FL070464

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|149077596|gb|EE166295.2|EE166295

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|148945486|gb|EC890724.2|EC890724

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|50337754|gb|CO532880.1|CO532880

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|20301206|gb|BQ164149.1|BQ164149

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|149060216|gb|EE157191.2|EE157191

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|211185207|gb|FL070463.1|FL070463

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|89252160|gb|DY623946.1|DY623946

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGGATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|78077825|gb|DV506254.1|DV506254

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|71768944|gb|DR966881.1|DR966881

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

EST: gi|28909464|gb|CB331825.1|CB331825

EST:     AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTC                         TTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC
genomic: AGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTAC

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: 129

CGGACGGGAGGGAGATCAGATGGTCGTCACGCCGCTGGGCGCCGGCAGCGAGGTGGGCCGTTCCTGCGTCCACATGACATTCAAGGGCCGCACCGTCCTCgtaagcacct ... atgcggctagTTCGACTGCGGCATCCACCCCGCGTACTCCGGCATGGCGGCGCTGCCCTACTTCGACGAGATCGACCCGTCCGCCATAGACGTCCTCCTCATCACCCA

Block sizes: 46 (upstream exon), 38 (downstream exon)
Score: 22

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 32