ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACTATGAGCGCCACAGCGGGACTGGCCATGGCTATGAGATGAAGCGTGATGGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagactagtatattgtttttagcatagtatttctgtgactatgcctctggaaggtttaattgtactaatgaagccctctgtgactag

Basic information

species	Zea mays
transcript	GRMZM2G055276_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G055276_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g52390.1 (Oryza sativa), 5'ss of exon 2

ACTATGAGCGCCACAGCGGGACTGGCCATGGCTATGAGATGAAGCGTGATGGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagactagtatattgtttttagcatagtatttctgtgactatgcctctggaaggtttaattgtac-taatgaagccctctgtgactag
| |||||||||||||| || ||||||| ||| |||||||||||||||||||| |||||||||||||||||||| ||||| ||||||||   | |||| ||||| ||  | |  |||  |||||     ||  |   ||| || ||  |    || | |     ||    | || ||     ||  ||   |||
ATTATGAGCGCCACAGTGGTACTGGCCGTGGTTATGAGATGAAGCGTGATGGTGCAGGGCGTGGGAACTGGGGAACTGCTACTGATGAGGCTCTTGCACAgtaggggaattt-tat-ctgttt-----atgatgcctct-tgtcttggatagtgaaggcacagataactcatagtgttattcttggtatgtag

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|31349217|gb|CD433574.1|CD433574

EST:     GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|60353689|gb|DN220662.1|DN220662

EST:     GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|24773994|gb|CA409248.1|CA409248

EST:     GGCGCAGGGCGAGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTGCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|31354537|gb|CD438894.1|CD438894

EST:     GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCATAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|32840290|gb|CD979971.1|CD979971

EST:     GGCGCAGGGCGAGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|20208191|gb|BQ134280.1|BQ134280

EST:     GGCGCAGGGCGAGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|31353905|gb|CD438262.1|CD438262

EST:     GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|211259675|gb|FL420540.1|FL420540

EST:     GCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCCA                         GGATGCAGAGGACTCCCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGA
genomic: GCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCC-Agtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGA

EST: gi|29944933|gb|CB815383.1|CB815383

EST:     GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         --A-G--GA---CTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|22819581|gb|BU499671.1|BU499671

EST:     GGCGCAGGGCGAGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

EST: gi|9952020|gb|BE638603.1|BE638603

EST:     GGCGCAGGGCGAGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCA                         GGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGGTGCTGAGAA
genomic: GGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAA

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: 1271

ACTATGAGCGCCACAGCGGGACTGGCCATGGCTATGAGATGAAGCGTGATGGCGCAGGGCGTGGGAACTGGGGCACTGCCACTGATGAACTTATTGCCCAgtaaggagac ... ctgtgactagGGATGCAGAGGACTCTCCGAAGATGGAGGAGGCTGCTCCTGTTGCTGAGAAACAAGGTGAGCAGAATGATGCCCCAGCAGCAGATGAGAACAAAGATAAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 934

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1064