ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CAACATGAGCCTTGGGAAAGTTGCAGTGTCATTTACGCACACCATCAAGGCTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaattttttcatccctgtacaaatgctaggaaagcaacatgttttgaattttaagaaatttctttgtcttcttatactaagtattcgtatggcag

Basic information

species	Zea mays
transcript	GRMZM2G174107_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G174107_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os08g25624.2 (Oryza sativa), 5'ss of exon 3

CAACATGAGCCTTGGGAAAGTTGCAGTGTCATTTACGCACACCATCAAGGCTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaattttttcatccctgtacaaatgctaggaaagcaacatgttttgaatttt---aagaaatttctttgtcttcttatactaagt-attcgtatggcag
 ||||||||||| ||||| ||||| |||||||| || || |||||||| |||||||| ||||||||||||||| | || ||||||||||||||||||||||||| || |     ||| || ||     |     |||| || || || || |     |||| |  ||  || |||||  | ||| | | | | |||||||
TAACATGAGCCTGGGGAAGGTTGCTGTGTCATTCACACATACCATCAAAGCTATGGAACCTTTCTTTTCTGTTCTCCTCTCTGCAATTTTCCTTGGCGAGgtaacttgtagtgtcctatataatgttgattgctgcaatatattatgtatatctgagagaactacctgggttttctttcaataattgaatggcatggcag

upper sequence: GRMZM2G174107_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ05868 (Selaginella moellendorffii), 5'ss of exon 3

CAACATGAGCCTTGGGAAAGTTGCAGTGTCATTTACGCACACCATCAAGGCTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaattttttcatccctgtacaaatgctaggaaagcaacatgttttgaattttaagaaatttctttgtcttcttatactaagtattcgtatggcag
||||||||||||||| || ||||| ||||||||||| ||||| ||||||||||||||||| || || |||||| |||| || || || |||||||||||||||    |   |     | | ||| | |   | | |||     |||| |                                               
CAACATGAGCCTTGGAAAGGTTGCGGTGTCATTTACTCACACAATCAAGGCTATGGAGCCGTTTTTCTCTGTTCTTCTATCGGCTATGTTCCTTGGCGAGgta----tgatacgttcgcagaaaaggttctatatcaattgcctttgcag----------------------------------------------

upper sequence: GRMZM2G174107_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ27053 (Selaginella moellendorffii), 5'ss of exon 3

CAACATGAGCCTTGGGAAAGTTGCAGTGTCATTTACGCACACCATCAAGGCTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaattttttcatccctgtacaaatgctaggaaagcaacatgttttgaattttaagaaatttctttgtcttcttatactaagtattcgtatggcag
||||||||||||||| || ||||| ||||| ||||| ||||| ||||||||||||||||| || || |||||| |||| || || || ||||||||||||||| |  |    || | | | |  | |||    ||   | | |   |                                                 
CAACATGAGCCTTGGAAAGGTTGCGGTGTCGTTTACTCACACAATCAAGGCTATGGAGCCGTTTTTCTCTGTTCTTCTATCGGCTATGTTCCTTGGCGAGgta-tgatacgttcgcagaaaaggttctatatcagttgcctttgcag-------------------------------------------------

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|60351427|gb|DN218400.1|DN218400

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|13198536|gb|BG354370.1|BG354370

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|60354172|gb|DN221145.1|DN221145

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|148965579|gb|EE016409.2|EE016409

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGG
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGG

EST: gi|32850209|gb|CD989890.1|CD989890

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|149072176|gb|EE160417.2|EE160417

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTTCCA-TTGTTGGGTG-TG
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTT-CCAATTGTTGG-TGGTG

EST: gi|32841139|gb|CD980820.1|CD980820

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|32840783|gb|CD980464.1|CD980464

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|211399728|gb|FL235706.1|FL235706

EST:     CTATGGAGCCTTTCTTTTCTGGTATTCTTTCGGCAATTTCCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAAT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAAT

EST: gi|32850098|gb|CD989779.1|CD989779

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|148964314|gb|EC905711.2|EC905711

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|149078331|gb|EE167099.2|EE167099

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCANTTTTCCTTGGCGAG                         CTACCTACTATTTGGGT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGT

EST: gi|149098082|gb|EE184035.2|EE184035

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTC
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTC

EST: gi|13558927|gb|BG550282.1|BG550282

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|32940452|gb|CF045271.1|CF045271

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|148937400|gb|EC881580.2|EC881580

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|15313742|gb|BI478935.1|BI478935

EST:     GTTATTCTTTCTGCAATTTTCC-TGGCGAG                         CTACCTACTA-TTGGGT-GTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: GTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|148950588|gb|EC896170.2|EC896170

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAAATTGT-GGTGGT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAA-TTGTTGGTGGT

EST: gi|148937401|gb|EC881581.2|EC881581

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCTTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGT-GGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|148940598|gb|EC885404.2|EC885404

EST:     TTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: TTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|83279370|gb|DV943378.1|DV943378

EST:     AATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: AATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

EST: gi|24934366|gb|CA452584.1|CA452584

EST:     CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAG                         CTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT
genomic: CTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTT

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: 47 (upstream exon), 49 (downstream exon)
Score: 30

CAACATGAGCCTTGGGAAAGTTGCAGTGTCATTTACGCACACCATCAAGGCTATGGAGCCTTTCTTTTCTGTTATTCTTTCTGCAATTTTCCTTGGCGAGgtaatttttt ... cgtatggcagCTACCTACTATTTGGGTAGTATCTTCTCTTCTTCCAATTGTTGGTGGTGTTGCATTGGCATCTCTTACTGAGGCATCCTTTAACTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 387

Block sizes: 43 (upstream exon), 27 (downstream exon)
Score: 6