ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CAGTCAGTGGATTTTTGACTCACCTGCTAACTCTGATGTGGAGTCTAAACTGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtctcctaagaatctatgattcaactacgctggcagcaattctgtacaaaatttagtatttgtgtgtataacacttacatttgtttttccctag

Basic information

species	Zea mays
transcript	GRMZM2G140917_T01
intron #	15
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G140917_T01 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os06g48770.2 (Oryza sativa), 5'ss of exon 13

CAGTCAGTGGATTTTTGACTCACCTGCTAACTCTGATGTGGAGTCTAAACTGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtctcctaagaatctatgattcaactacgctggcagcaattctgtacaaaatttagtatttgtgtgtataacacttacatttgtttttccctag
|||||||||||||| ||||||||||| |||||| || ||||||||||||||| | ||   ||||||||||||||||||| |||||||||||||||||||||||||    |  |||     |  ||||||  |||    ||    | | ||    |   || ||   |     || ||  ||| | |||            
CAGTCAGTGGATTTATGACTCACCTGTTAACTCAGAGGTGGAGTCTAAACTGCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAAATTTTAGGAATACAAgtagg---ttgataatctcatgcgattcatttacat--gctatgactttgcttca---ttggtgcct-----tacaaatcttccttttaccag-------

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|211142855|gb|FL032416.1|FL032416

EST:     TGAGAAATTATCTGCTTGANTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAAAGGTC
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTC

EST: gi|211402616|gb|FL252144.1|FL252144

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAA
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAA

EST: gi|89763775|gb|DY690831.1|DY690831

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATG
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATG

EST: gi|148966697|gb|EE017760.2|EE017760

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATG
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATG

EST: gi|211144288|gb|FL032430.1|FL032430

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGG
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGG

EST: gi|211145719|gb|FL032443.1|FL032443

EST:     TGANAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGG
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGG

EST: gi|211145713|gb|FL032437.1|FL032437

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTANGAATACAA                         GTCTGCGCATATAAAGATGGGAAAGGTCATAATA
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGG-AAAGGTCATAATA

EST: gi|211144287|gb|FL032429.1|FL032429

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAAATTTAGGAATACAA                         GTCTGCGCATATAAAGATGGGAAAGG
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGG-AAAGG

EST: gi|211144292|gb|FL032434.1|FL032434

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACNAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGGAAAGG
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGG-AAAGG

EST: gi|211145720|gb|FL032444.1|FL032444

EST:     TGAGAAATTATCTGCTTGAGTTGNGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAA
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAA

EST: gi|67017334|gb|CO446083.1|CO446083

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATG
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATG

EST: gi|211142859|gb|FL032420.1|FL032420

EST:     TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAA                         GTCTGCGCATNTNAAGATGGAAAGGTCATAATAGATACTGCTGCTGGNTAT
genomic: TGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGG-TAT

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), 41 (downstream exon)
Score: 79

CAGTCAGTGGATTTTTGACTCACCTGCTAACTCTGATGTGGAGTCTAAACTGAGAAATTATCTGCTTGAGTTGGGAAGCGACAAAATTTTAGGAATACAAgtaggagtct ... ttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATGCTGGGGAAGTATGATCCCCGACCTGTTCAACCTGATTCTCTTTTTCCTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 381

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 545