ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtaagtactacgtcgctatttcatagtcaccataataattggtagtttggtaccatgttgaatcttacactcctcccaacttcaactcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAATTCTAGCGTGGATCTCAGTGCTTCAGATTTGATCAACAGAATATCATTCC

Basic information

species	Zea mays
transcript	GRMZM2G134045_T01
intron #	6
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 3'ss of exon 5

--gtaagtactacgtcgctatttcatagtcaccataataattggtagtttggtacca---tgttgaatcttacactcctcccaacttcaactcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAATTCTAGCGTGGATCTCAGTGCTTCAGATTTGATCAACAGAATATCATTCC
      |  | | ||   |||    ||      || |   |||| |  |  | |      | |  | |||||   || |  | |||| | || | || |||| || |||||||| |||||||||||||||||||| |||||| | || | ||| | ||||||||| ||||||||||||||||||||| |  | || ||||
agtctggggccatgttcttatggtgtatcggttattacctttggaatatctgcattgacctatacagtcttatgttctttaccactttaccttgctgtagGGATCTTCTGCCATTTCAAGTGCTGATCTATTTGGTCATCCAACCAATAGTTCCAACGTGGATCTGAGTGCTTCAGATTTGATCAACCGGCTTTCTTTCC

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|87155179|gb|DY399968.1|DY399968

EST:     CCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT        
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagG

EST: gi|78082818|gb|DV511211.1|DV511211

EST:     CCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT        
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagG

EST: gi|86467876|gb|DY234246.1|DY234246

EST:     ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT                         GGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT

EST: gi|87154151|gb|DY398940.1|DY398940

EST:     CCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT        
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagG

EST: gi|78110556|gb|DV528966.1|DV528966

EST:     CCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT        
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagG

EST: gi|50329244|gb|CO524370.1|CO524370

EST:     CCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT        
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagG

EST: gi|78027266|gb|DV495653.1|DV495653

EST:     ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT                         GGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT

EST: gi|17931094|gb|BM268054.1|BM268054

EST:     ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT                         GGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT

EST: gi|26455703|gb|CA827286.1|CA827286

EST:     CCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT        
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagG

EST: gi|22545199|gb|BU097558.1|BU097558

EST:     CCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT        
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagG

EST: gi|211356763|gb|FL443096.1|FL443096

EST:     ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT                         GGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT

EST: gi|89759290|gb|DY688159.1|DY688159

EST:     ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCT                         GGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT
genomic: ATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAAT

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: 44 (upstream exon), 43 (downstream exon)
Score: 22

ACAGAAATTCTCGAATGCAAAATCAATTTCATCCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTCAAGTCTCTCTCCAAAAGTTTTCTgtaagtacta ... ctcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAATTCTAGCGTGGATCTCAGTGCTTCAGATTTGATCAACAGAATATCATTCC

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 106

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 185

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 101

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ggtagtttggtaccatgttgaatcttacactcctcccaacttcaactcgttgcagGGTTCCTCTGCCATATCAAGTGCTGATCTATTTGGCCATCCAGCAAACAATTCTAGCGTGGATCTCAGTGCTTCAGATTTGATCAACAGAATATCATTCC