ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT

Basic information

species	Zea mays
transcript	GRMZM2G006765_T02
intron #	4
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G006765_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 3'ss of exon 4

gttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctct-ggtatttatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT
                     |     || |  || || |     |  | ||||   | |||   || | |   |||  |  ||| | ||| || | || || ||||||||||||||||||||||||||  |||||||| ||||| || || |  |||||||| |||||||||||||||||||||| |      |||  |   |   |   | 
--------------------gtaaaccttacgcctacactttatgaggtagcaagaatgcaggtatttctg---ctttctgttaacatcattcttttggcatctatgctacagATGTGGATCTCAAAGGGAGAGTATGATGAGTCGGGTCCAGCAATTGTTCACCGGAAGTGCTTCTAAGCTCTGGCTTTTTAATCGCTTATCTACAAGGCAG

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|32865167|gb|CF004849.1|CF004849

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|15589987|gb|BI674603.1|BI674603

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|40335388|gb|CK369458.1|CK369458

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|6696055|gb|AW289163.1|AW289163

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCCCCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|78117774|gb|DV536161.1|DV536161

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|6056880|gb|AW091285.1|AW091285

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|6223802|gb|AW154933.1|AW154933

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|7135193|gb|AW497977.1|AW497977

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|32865274|gb|CF004956.1|CF004956

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|8318625|gb|BE025370.1|BE025370

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|211170934|gb|FL481186.1|FL481186

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|45847060|gb|CN071003.1|CN071003

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|8576946|gb|BE129583.1|BE129583

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|113701192|gb|EE678696.1|EE678696

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|71315361|gb|DR794284.1|DR794284

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|60401170|gb|DN233977.1|DN233977

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|60359273|gb|DN226246.1|DN226246

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|37382768|gb|CF628348.1|CF628348

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|18176206|gb|BM351242.1|BM351242

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|32870150|gb|CF009832.1|CF009832

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|32865331|gb|CF005013.1|CF005013

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|4646699|gb|AI491559.2|AI491559

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTACAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

EST: gi|15554174|gb|BI644172.1|BI644172

EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

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: 48 (upstream exon), 48 (downstream exon)
Score: 136

GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 106

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 85

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 594

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT