ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGCAGCCCCGCTCGTCGCCTTCCTCCAGAACCCGCAGCTCGTGCAGGAGTTCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttctccctactccctctgctcaagtcccgttttcgagacatgtatgtatactttggttggctaggcatgcaggtttgtggaattccgtgttta...

Basic information

species	Zea mays
transcript	GRMZM2G151549_T02
intron #	1
splice site	5'
intron type	U2

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|148947189|gb|EC892527.2|EC892527

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|148988254|gb|EE031628.2|EE031628

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|29946193|gb|CB816026.1|CB816026

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|149086591|gb|EE176135.2|EE176135

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|148945927|gb|EC891220.2|EC891220

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|71772604|gb|DR970532.1|DR970532

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|211543296|gb|FL204964.1|FL204964

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATTGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|148932020|gb|EC875324.2|EC875324

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|31406351|gb|CD485083.1|CD485083

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|211543294|gb|FL204962.1|FL204962

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATTGGTCCTGA
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGA

EST: gi|148942799|gb|EC887829.2|EC887829

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT

EST: gi|211543298|gb|FL204966.1|FL204966

EST:     CAGGCC-GACAAACAGTACAACATCCACATGCTCCAGGAAGCGAYACCAG                         ATCGGTCCTGACCAGA
genomic: CAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGA-GCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGA

EST: gi|211543297|gb|FL204965.1|FL204965

EST:     CAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATTACCAG                         ATTGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTT
genomic: CAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGAT-ACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTT

EST: gi|211543292|gb|FL204960.1|FL204960

EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATTGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGC-AAATTTCAG
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAG

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: 48 (upstream exon), 49 (downstream exon)
Score: 268

CGCAGCCCCGCTCGTCGCCTTCCTCCAGAACCCGCAGCTCGTGCAGGAGTTCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 230

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 194

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 223

Data associated with selected splice site

Sequence

Basic information

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

RNA-Seq data