ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaagcaacggtatgtttcgtcattggtctacgacattcatagagatatgcctaacacacacagacacacacatacacattcattgtctcgtcag

Basic information

species	Zea mays
transcript	GRMZM2G095141_T03
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G095141_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os12g04020.1 (Oryza sativa), 5'ss of exon 8

GCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaagcaacggtatgtttcgtcattggtctacgacattcatagagata-tgcctaacacacacagacacacacatacacattc-attgtctcgtcag------------------
|||| ||||||| ||||| ||||| || ||||||||||| ||||| |||||||| || || ||||| || |||||||||||||| || ||||| || |||||||||||    ||   |  |   | || ||  | | || |   |      || ||   |||| ||||||| |||  || | |   ||  |||      ||                   
GCTTGAAGCTGTAATGTCTTTTGTTCCAGTGGACAAGATCGCCGTCCATTTCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaaccacacttcacatcctgccaatg-ccaatga-acaaaccatcttactgaaaaacagacacaga-acaaccagaaatgctctgttggtctaacatttccttttgtattaccag

upper sequence: GRMZM2G095141_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os11g04210.1 (Oryza sativa), 5'ss of exon 8

GCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaagcaacggtatgtttcgtcattggtctacgacattcatagagata-tgcctaacacacacaga-cacacacatacacattcattgtctcgtcag------------------
|||| ||||||| ||||| ||||| || ||||||||| | ||||| ||||| || || || ||||| || |||||||||||||| || ||||| || |||||||||||    ||   |  |   | || ||  | | || |   |      || ||   |||| ||||| | ||  || | |  |  |  ||| |    ||                   
GCTTGAAGCTGTAATGTCTTTTGTTCCAGTGGACAAGCTCGCCGTCCATTTTCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaaccacacttcacatcctgccaatg-ccaatga-acaaaccatcttactgaaaaacagacacaaaacaatcagaaatgctctgcttggcctaacatttccttttgtattaccag

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|211088485|gb|FL432076.1|FL432076

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|71301050|gb|DR786554.1|DR786554

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|76016005|gb|DT943175.1|DT943175

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCTCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|76016845|gb|DT944015.1|DT944015

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|91872712|gb|EB402669.1|EB402669

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|211227159|gb|FL464265.1|FL464265

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|71318555|gb|DR796038.1|DR796038

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|148950048|gb|EC895580.2|EC895580

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|30306657|gb|CD001330.1|CD001330

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|31911304|gb|CD651858.1|CD651858

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|149072591|gb|EE157105.2|EE157105

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|211081279|gb|FL464186.1|FL464186

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|211184211|gb|FL472379.1|FL472379

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|161587654|gb|EY960381.1|EY960381

EST:     TCCACGATACGTATGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTG

EST: gi|110950579|gb|EE170731.1|EE170731

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|211139185|gb|FL464627.1|FL464627

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

EST: gi|5761976|gb|AI967024.1|AI967024

EST:     TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAA                         ATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG
genomic: TCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCG

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: 36

GCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaag ... gtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCGTATGCCAAGGGCGCCACTGGCAACGTCGCCACGGAGGATGTCGTGTACA

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 87

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 119