ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTTCCCAGATTGATAGGGAAAGAGTTCGGACTGTAGGGGCTATTGAATACTTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgtttttcatattttaggaaaatccatcactggagcgagttgattctggaaccagtattcatttgtgcttattactttgataacag

Basic information

species	Zea mays
transcript	GRMZM2G172427_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G172427_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os02g47900.1 (Oryza sativa), 5'ss of exon 5

CTTCCCAGATTGATAGGGAAAGAGTTCGGACTGTAGGGGCTATTGAATACTTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgtt-tttcatattt-taggaaaatccatca---ctggagcgagttgattctggaac---cagtattcatttgtgcttattactttgataacag--------------------------------------
|||| |||||||| ||||||||||||| ||||  |||| ||| || |||| | |||||||||||||| | ||| || || ||||||| ||||| ||| |||||| |    | ||| || | | |   |||||  || |     | ||  | |  ||| ||| |      |  | | |  |  | | |||||  |  |  |                                       
CTTCTCAGATTGACAGGGAAAGAGTTCAGACTACAGGGACTACTGCATACGTGATTGATGCCACAAGATATGGCAACGTATCCCGTTTTATTAATCATAGgtaactggactattttatgtctgtcccaaaatatattaacttagaagttaatatattttgggatggaaggagtacttgggaacatcttactacgggataaatttgttctggaaccaatgcttttgccccttcattgcag

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|67021860|gb|CO450609.1|CO450609

EST:     TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAG                         TTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG
genomic: TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgt ... ttgataacagTTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG

EST: gi|10191692|gb|BE761768.1|BE761768

EST:     TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAG                         TTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG
genomic: TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgt ... ttgataacagTTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG

EST: gi|32832594|gb|CD972272.1|CD972272

EST:     TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAG                         TTGTTCCCCGAATCTCAGTA
genomic: TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgt ... ttgataacagTTGTTCCCCGAATCTCAGTA

EST: gi|14701180|gb|BI233598.1|BI233598

EST:     T-ANTTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAG                         TTGTTCCCCGAATCTCAGTACCCG
genomic: TTA-TTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgt ... ttgataacagTTGTTCCCCGAATCTCAGTACCCG

EST: gi|69351242|gb|DR452068.1|DR452068

EST:     TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAG                         TTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG
genomic: TTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgt ... ttgataacagTTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG

EST: gi|83278797|gb|DV942805.1|DV942805

EST:     GAAATGTTTCCCGTTATATTAGTCACAG                         TTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG
genomic: GAAATGTTTCCCGTTATATTAGTCACAGgtaattccgt ... ttgataacagTTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTG

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: 197

CTTCCCAGATTGATAGGGAAAGAGTTCGGACTGTAGGGGCTATTGAATACTTTATTGATGCCACAAGGTCTGGAAATGTTTCCCGTTATATTAGTCACAGgtaattccgt ... ttgataacagTTGTTCCCCGAATCTCAGTACCCGGTTGGTTTTGGTAGAGAGCAAAGATTGCCAGCTTGCTCACATTGGATTGTTTGCTAATCAAGAT

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 66

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 110