ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgtacccccttggctcttaatttgtatctgtgtttgtccgctgccatcagtcaatgatcagacactttgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGTGACGACGAGATTACTCGCAACCTTCGGAAGGTCAAGCACCCATCCTTCA

Basic information

species	Zea mays
transcript	GRMZM2G122223_T01
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G122223_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g49770.1 (Oryza sativa), 3'ss of exon 3

gtatgtacccccttggctcttaatttgtatctgtgtttgtccgctgccatcagt-caatgatcagacactttgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGTGACGACGAGATTACTCGCAACCTTCGGAAGGTCAAGCACCCATCCTTCA
   | |  | | ||| ||  ||    | |||  | ||   || |  ||| ||     || ||||    ||| | ||  ||||||||||| ||||||||||| ||||| || ||||||||||| || || ||||| || |||||   |||||||||| |||||||||| |||||| ||||  
--gtttgtctctttgccttgta----gcatcacttttca-ccaccaccaccaccatcatcatcaattgcttcgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGTGAGGATGAGATAGTTCGCAACCTTAGGAAGGTCAAACACCCAGCCTTTG

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|211286951|gb|FL445024.1|FL445024

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|91048468|gb|EB158886.1|EB158886

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|211136816|gb|FL064025.1|FL064025

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|211136815|gb|FL064024.1|FL064024

EST:     TGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATAACGAG                         GAGTTGCTCGAGC
genomic: TGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATA-CGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGC

EST: gi|60343467|gb|DN210440.1|DN210440

EST:     ATGATCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|211136814|gb|FL064023.1|FL064023

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|9733598|gb|BE512350.1|BE512350

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|76933767|gb|DV173581.1|DV173581

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|211136817|gb|FL064026.1|FL064026

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|9731032|gb|BE509784.1|BE509784

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|40334279|gb|CK368349.1|CK368349

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|37377713|gb|CF625486.1|CF625486

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

EST: gi|76933772|gb|DV173582.1|DV173582

EST:     ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAG                         GAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT
genomic: ATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGT

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: 46 (upstream exon), 49 (downstream exon)
Score: 36

ATAAGGATGTTTCAGACAAGAGTGTTACTGGGAGGAATGAACATGTATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtaccc ... tgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGTGACGACGAGATTACTCGCAACCTTCGGAAGGTCAAGCACCCATCCTTCA

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 89

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 74

Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 55

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tgtatctgtgtttgtccgctgccatcagtcaatgatcagacactttgcttcgcagGAGTTGCTCGAGCTTGGAGACAAAATTGGATATGTCAACACAGGGTTACGTGACGACGAGATTACTCGCAACCTTCGGAAGGTCAAGCACCCATCCTTCA