ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCATTCTGATGTCAAGTATATTGATCCAACATACATGCTCCGCGCTGTGCGAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatcatttctccttgctgcatctctgcctcttgacaaaatcctttagttttcatgcctaaccgtttgttgttctgtgtaaaccctacag

Basic information

species	Zea mays
transcript	GRMZM2G009591_T02
intron #	13
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G009591_T02 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os10g26570.1 (Oryza sativa), 5'ss of exon 13

CCATTCTGATGTCAAGTATATTGATCCAACATACATGCTCCGCGCTGTGCGAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatcatttctccttgctgcatctctgcctcttgacaaaatcctttagttt-tcatgcctaaccgtttgttgttctgtgtaaaccctacag
 ||||||||||| ||||| |||||||| ||||||||| |||| |||||||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||||| || | |||| | |   |   | |||||| |   ||||  ||    ||||  |  || || | | ||  ||  ||||    |||    |||
ACATTCTGATGTGAAGTACATTGATCCTACATACATGGTCCGTGCTGTGCGTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacc-tttcccttcattagctttctgccac---acaagttctagcagttcatgttgtctcagcattgatt--tctgatggaacttcgcag

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|116821424|gb|EC864724.1|EC864724

EST:     GAG-CAATGCATCCGATG-CATCCTGTGCACCGTGCTTGGTCAGAATGTT                         GTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGT-CAAC
genomic: GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC

EST: gi|78119430|gb|DV537814.1|DV537814

EST:     GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCT                         GTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC
genomic: GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC

EST: gi|160481643|gb|EY254213.1|EY254213

EST:     GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCT                         GTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAAC
genomic: GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAAC

EST: gi|5713662|gb|AI943654.1|AI943654

EST:     GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCT                         GTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC
genomic: GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC

EST: gi|91056415|gb|EB166833.1|EB166833

EST:     GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCT                         GTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC
genomic: GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC

EST: gi|94477845|gb|EB706803.1|EB706803

EST:     GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCT                         GTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC
genomic: GAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAAC

EST: gi|211078552|gb|FL464179.1|FL464179

EST:     AGCCAATGCATCCGATGCCATCCTTGTGCACCGTGCTTGGTCAGAATGCT                         GTTCATGGTGCCTTTGCGGGTTTTTAGCGGCATCACAACCGGGGTGTGCAA
genomic: AGCCAATGCATCCGATGCCATCC-TGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGG-TTTTAGCGGCATCACAACCGGGGTGTGCAA

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: 38 (upstream exon), 43 (downstream exon)
Score: 45

CCATTCTGATGTCAAGTATATTGATCCAACATACATGCTCCGCGCTGTGCGAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatc ... aaccctacagGTTCATGGTGCCTTTGCGGGTTTTAGCGGCATCACAACCGGGGTGTGCAACACACACAATGTGTACTTGCCGATACCGGAAGTGATCAAATCCACGAGGT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 62

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 116