ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGAAACTGGAAGCATTGATTGCTGCTGTTAACAGCAGTGATAGCAGTCACATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgtgccacgttaccgggttctaagttttcttatgctgcatatatgttaaccttgtttttctatctttacccag

Basic information

species	Zea mays
transcript	GRMZM2G165926_T02
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G165926_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g13970.1 (Oryza sativa), 5'ss of exon 5

AGAAACTGGAAGCATTGATTGCTGCTGTTAACAGCAGTGATAGCAGTCACATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgtgccacgttac-cgggttctaagtt-ttcttatgctgcatatatgttaaccttgtt-tttctatctttacccag
|||||||||||||  | ||  ||||||| ||||| ||||||||||| ||||| |||||| ||||||| |||||||||||||| || ||||| ||  |||||||||  |||  ||  ||   |||| |||| ||| || || |  || || | || | ||    |  | ||  ||||| | |||
AGAAACTGGAAGCGCTAATCTCTGCTGTGAACAGTAGTGATAGCAGCCACATCGTTCATGTCCCTCCCGGTGAAAATGCCCTTTCCGATGTGCTTATAAGgtaataatgtatcaatttgttcgggctctaggttgttgttttaatgtatttctgctgacaaattaatatccctcttttcacag

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|32808865|gb|CD961099.1|CD961099

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|84977035|gb|DW475457.1|DW475457

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|32838026|gb|CD977704.1|CD977704

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|211459834|gb|FK984334.1|FK984334

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|34391254|gb|CF384482.1|CF384482

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|261490449|gb|GO359940.1|GO359940

EST:     TTGTTCATATCCCTCCTNGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGTTGCTTCCGC
genomic: TTGTTCATATCCCTCCT-GGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|67025094|gb|CO453843.1|CO453843

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|148954523|gb|EC899958.2|EC899958

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|28987468|gb|CB351650.1|CB351650

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAG
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAG

EST: gi|71419001|gb|DR804614.1|DR804614

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|40334578|gb|CK368648.1|CK368648

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAAGCGGTTTTGCTGCTTCCG
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAA-GCGGTTTTGCTGCTTCCG

EST: gi|32806343|gb|CD958577.1|CD958577

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

EST: gi|38502551|gb|CF972411.1|CF972411

EST:     ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAG                         CACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC
genomic: ATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGC

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: 206

AGAAACTGGAAGCATTGATTGCTGCTGTTAACAGCAGTGATAGCAGTCACATTGTTCATATCCCTCCTGGTGAAAATGCCCTCTCTGATGTCCTCCTAAGgtaattgtgt ... ctttacccagCACTCCTATATTTACTGGTGAAGAAGGTGGAAGCGGTTTTGCTGCTTCCGCAGCAGCTGCCGCAGCTACTGGAGCATCTGGATTTGAATTTGGTGTGGAC

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 281

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 277