ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTTAAGACGACGAGCCCGAAGAAGTACTGTGTCCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaacagaccaacactcacctccttccctccaagttcatttgacatgggcgtccccaagattactatcattcaaatgcctgacgccctttgcaatttctcag

Basic information

species	Zea mays
transcript	GRMZM2G155543_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G155543_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os04g45190.1 (Oryza sativa), 5'ss of exon 3

GTTAAGACGACGAGCCCGAAGAAGTACTGTGTCCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaacagaccaacactcacctccttccctccaagttcatttgacatgggcgtccccaagattactatcattcaaatgcctgac-gccctttgcaatttctcag
|| ||||| || ||||| ||||||||||| ||| |||| ||||| ||||| ||||| || |||||||||||||||||||| ||| || |        |||  |||| |||||||   | ||     |  || ||   | ||  |  | |  || |  | ||||    |||| |  || |||| || || ||
GTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgct-------caattctcatctccttcatgcaaaacgt-tgggatattttcctcgtcctgttatctgt-gtgcaaaaaattgacagttctctgcatttccttag

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|211414035|gb|FK970738.1|FK970738

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCAGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|211416583|gb|FK970749.1|FK970749

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|211419127|gb|FK970761.1|FK970761

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|211416592|gb|FK970758.1|FK970758

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|211414037|gb|FK970740.1|FK970740

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCAC
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCAC

EST: gi|211414040|gb|FK970743.1|FK970743

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|76935292|gb|DV174281.1|DV174281

EST:     CGGCCCAACAGCGGCATCGTGCCACCTCGGGTC-ACCAGCGATGTCATTG                         TGACAATGCAAGCACAAA
genomic: CGGCCCAACAGCGGCATCGTGCCACCTCGG-TCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAA

EST: gi|211416580|gb|FK970746.1|FK970746

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTYGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|211416586|gb|FK970752.1|FK970752

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGC
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGC

EST: gi|211416590|gb|FK970756.1|FK970756

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|89252124|gb|DY623910.1|DY623910

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCACCGATGTCATTG                         TGACAATGCAAGCACAAAAGGA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGA

EST: gi|211414038|gb|FK970741.1|FK970741

EST:     GGCCCAAACAGCGGCATCGTGCCACCTCGGTTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCG
genomic: GGCCCAA-CAGCGGCATCGTGCCACCTCGGT-CCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCG

EST: gi|211416582|gb|FK970748.1|FK970748

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCAGACATGCAGTGCAAGGAAC
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGA-C

EST: gi|211419126|gb|FK970760.1|FK970760

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCAGACATGCAGTGCAAGGGAC
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGG-AC

EST: gi|29543772|gb|CB604152.1|CB604152

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|149109099|gb|EE190008.2|EE190008

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|211414039|gb|FK970742.1|FK970742

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCAGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|94478824|gb|EB707782.1|EB707782

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCCGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|149104621|gb|EE290069.2|EE290069

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACA

EST: gi|211416578|gb|FK970744.1|FK970744

EST:     CCGGCCCAACAGCGGCATCGTGCCACCTCGTTCCACCAGCGATGTCATTG                         TGACAATGCAAGCACAAAAGGAGGCGCCACCGGNACATGCAGTGCAAGGAC
genomic: CCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGG-ACATGCAGTGCAAGGAC

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: 42 (upstream exon), 42 (downstream exon)
Score: 318

GTTAAGACGACGAGCCCGAAGAAGTACTGTGTCCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaa ... aatttctcagTGACAATGCAAGCACAAAAGGAGGCGCCACCGGACATGCAGTGCAAGGACAAGTTTCTTGTGCAAAGTGTCGTTGTGGCGGAAGGGACCTTAGTCAAGGA

Block sizes: 42 (upstream exon), 41 (downstream exon)
Score: 113

Block sizes: 42 (upstream exon), 47 (downstream exon)
Score: 130