ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACCAGTACCAGCTCCACTTGGCGGTGTGATAATAATTGGCGAGGAACAAATAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctcttgcctacatctctttatttttctttgtggtgccaacttcatgttggttggtaccgtggctacactaattctaacataattcttttctccttgattactgatttcttggcag

Basic information

species	Zea mays
transcript	GRMZM2G402002_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G402002_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 5'ss of exon 9

ACCAGTACCAGCTCCACTTGGCGGTGTGATAATAATTGGCGAGGAACAAATAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctcttgcctacatctctttatttttctttgtggtgccaacttcatgttggttggtaccgtggctacactaattctaacataattcttttctccttgattactgatttcttggcag
||| ||||||||||| ||||| ||||| ||||| ||||| |||||   ||||||||||||||||||||| || ||||||| ||| |||||||| ||||| ||||| | |||    | |     |  ||   ||||||||||| |||   |||  |  ||||   |||| || | |   ||||  |  || | |  ||| |  ||    |           
ACCTGTACCAGCTCCTCTTGGTGGTGTCATAATTATTGGTGAGGAGACAATAGTTTACTGCAATGCCAACTCTACATTTAGAGCTATACCAATCAAACAGgtaatatattgttctctttatggttcttagatttgtggtgcctactgtgtgt--gcaggtatgttggc-actccataactaat-tgtttttgtcttccattcttgtacag----------

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|74245573|gb|DT653487.1|DT653487

EST:     TAGTTTACTGCAATGCCCATTCCACATTTAAAGCGATACCAATAAAACAA                         TCCATCATCAGAGCTTATGGACGGGGTGACCCAGATGGTTCTCGATATTTA
genomic: TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctctt ... ttcttggcagTCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA

EST: gi|32933076|gb|CF037888.1|CF037888

EST:     TAGTTTACTGCAATGCCAATTCCACATNTAAAGCGATACCAATAAAACAA                         TCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA
genomic: TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctctt ... ttcttggcagTCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA

EST: gi|33093329|gb|CF053323.1|CF053323

EST:     TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAA                         TCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA
genomic: TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctctt ... ttcttggcagTCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA

EST: gi|32931773|gb|CF036585.1|CF036585

EST:     GCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAA                         TCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA
genomic: GCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctctt ... ttcttggcagTCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA

EST: gi|32931536|gb|CF036348.1|CF036348

EST:     TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAA                         TCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA
genomic: TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctctt ... ttcttggcagTCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTA

EST: gi|32933109|gb|CF037921.1|CF037921

EST:     TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAA                         TCCATCATCAGAGCTTATGGACGGG
genomic: TAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctctt ... ttcttggcagTCCATCATCAGAGCTTATGGACGGG

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), 49 (downstream exon)
Score: 576

ACCAGTACCAGCTCCACTTGGCGGTGTGATAATAATTGGCGAGGAACAAATAGTTTACTGCAATGCCAATTCCACATTTAAAGCGATACCAATAAAACAAgtaatctctt ... ttcttggcagTCCATCATCAGAGCTTATGGACGGGTTGACCCAGATGGTTCTCGATATTTACTCGGTGATAATACTGGAATTTTGCATTTACTTGTCCTTACCCATGAAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 291

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 220