ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCATCCTTCAGCCTCTGTACTGATTCCAGCTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaactcaattggcatgttggacctctttttaatgttttcctttttttctacatttatctgtattctggttattagaatgtgtgttttcaccagtccat...

Basic information

species	Zea mays
transcript	GRMZM2G009845_T02
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G009845_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os05g06350.1 (Oryza sativa), 5'ss of exon 7

GCATCCTTCAGCCTCTGTACTGATTCCAGCTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaac---tcaattggcatgttggacctctttttaatgttttcctttttttctacatttatctgtattctggttattag--aatgtgtgttttcaccagtccat
||||||||| || || || || ||||||||| |||||||||||||||||||||| |||||||| |||||||||||||||||||||   | ||||    || |  |  ||| ||||    ||    |||| |  |||   ||      | |  ||  |||    ||      || |  ||     
GCATCCTTCGGCTTCAGTGCTCATTCCAGCTTTGCGCACGGTGGGTAACATCGTCACTGGGGATGACATGCAGACTCAGgtaaacatattaattcatttggttcatttctatttatacattattcttttgtgaacaaacatgaaagctgtaattcctagttgctgcagcgattaaagag-----

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|211452352|gb|FL292617.1|FL292617

EST:     TCTGCGCACGGTGGGTAACATCTGTAACTGGNGACGACATGCANACTCAG                         TGTGNCNTTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC
genomic: TCTGCGCACGGTGGGTAACATC-GTAACTGGGGACGACATGCAGACTCAGgtaaactcaa ... cttcctgcagTGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC

EST: gi|71322679|gb|DR798011.1|DR798011

EST:     CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAG                         TGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC
genomic: CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaactcaa ... cttcctgcagTGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC

EST: gi|31350199|gb|CD434556.1|CD434556

EST:     CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAG                         TGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC
genomic: CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaactcaa ... cttcctgcagTGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC

EST: gi|32848180|gb|CD987861.1|CD987861

EST:     CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAG                         TGTGTCATTGACAATCAAGCACTCCCATGCCTTTTGAACCTACTGACCACC
genomic: CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaactcaa ... cttcctgcagTGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC

EST: gi|32929275|gb|CF034087.1|CF034087

EST:     CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAG                         TGTGTCATTGACAATCAAGCACTCCCATGCCTTTTGAACCTACTGACCACC
genomic: CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaactcaa ... cttcctgcagTGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC

EST: gi|32928651|gb|CF033463.1|CF033463

EST:     CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAG                         TGTGTCATTGACAATCAAGCACTCCCATGCCTTTTGAACCTACTGACCACC
genomic: CTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaactcaa ... cttcctgcagTGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACC

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), 48 (downstream exon)
Score: 410

GCATCCTTCAGCCTCTGTACTGATTCCAGCTCTGCGCACGGTGGGTAACATCGTAACTGGGGACGACATGCAGACTCAGgtaaactcaa ... cttcctgcagTGTGTCATTGACAATCAAGCACTTCCATGCCTTTTGAACCTACTGACCACCAACCACAAGAAAAGCATCAAGAAAGAAGCATGCTGGACAATCTCAAACA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 371

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 322