ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgctctggatctctggttatttttccttggatattgatatctttccttttttttaggattactcgacctcactaaatagatattctcactaga...

Basic information

species	Zea mays
transcript	GRMZM2G074530_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G074530_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os04g58880.1 (Oryza sativa), 5'ss of exon 9

ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgctctggatctctg-------------gttatttttccttggatattgatatctttccttttttt---taggattactcgacctcactaaatagatattctcactaga------
|||||||||||||||||| ||||| |||||||||||||||||||| ||||| ||||||||||||||||| ||||| |||||||||||||||||| | |||||     ||||    || | ||             |||  |||  |||| || ||| || | ||  |  | ||   |||||  | |   ||| |  |  ||   ||| |  | |        
ATCAGAAGCCAAAGATTTATTGGGGGATGACTGGATTCAAAGGCATCGAAGAATTGTACAACAAAATGCAAATCATTATAGAAGGATTGCTTGGTCAAAGgtccatttgctagacatatttgaacaaaactcactgtttgtttctcttgcattttgttaccattgttgatgtttaataggaagagtgagcctaaagatctatgcattattccgattttacag

upper sequence: GRMZM2G074530_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT5G52340.1 (Arabidopsis thaliana), 5'ss of exon 9

ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgctctggatctctggttatttttccttggatattgatatctttccttttttttaggattactcgacctcactaaatagatattctcactaga
 |||||||| |||||||| || |||||||| ||| ||||||  || ||||| |||||||||||| |||| |||||||| |  ||  || ||||||| ||||| | |    ||    | |  ||||  |  |      ||  |   |  | |  ||| |  |  |  |  ||  |  ||                      
GTCAGAAGCAAAAGATTTATTAGGTGATGATTGGGTTCAAATACATCGAAGAATTGTACAACAACATGCAAATCAGTACAAGAGAGTTTCTTGGGCAAAGgtttactcaatc---gttttaggtttatactttaaaaatgctttaaaatgtattttctgattagtcttttcttctgcag---------------------

upper sequence: GRMZM2G074530_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv08s0007g02340.t01 (Vitis vinifera), 5'ss of exon 9

ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgctctggatctctggttatttttccttggatattgatatctttccttttttttaggattactcgacctcactaaatagatattctcactaga----
 |||||||| || ||||||||||| ||||| ||| | ||||  ||||||||||||||||| ||  |||| || |||||||  ||| |  ||||||| ||||| |   || |||    |     ||  | |    ||   || ||| | || |  |||||  ||    | |     |   ||  ||||| || |   |       
GTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAGgttt---tgttctttgaccaaacttgatataaaatgtccat-gatttgttactatttttccagtgcaatttctttttcttatttagatgttgtttgtttttacc

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|71432760|gb|DR813810.1|DR813810

EST:     GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|211149050|gb|FK958467.1|FK958467

EST:     GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|211149052|gb|FK958469.1|FK958469

EST:     GGATTGTACAACAAAATGCCAATCAGTATARAAGGATTGCTTGGGCVAAR                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|32929635|gb|CF034447.1|CF034447

EST:     ACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: ACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|33092047|gb|CF052041.1|CF052041

EST:     GTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: GTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|5740705|gb|AI948395.1|AI948395

EST:     GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|211159123|gb|FL458119.1|FL458119

EST:     CAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: CAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|33093183|gb|CF053177.1|CF053177

EST:     ACAACAAAATGCCGATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: ACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|211159122|gb|FL458118.1|FL458118

EST:     GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: GGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

EST: gi|32849856|gb|CD989537.1|CD989537

EST:     ACAACANAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG                         GTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT
genomic: ACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGT

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), 48 (downstream exon)
Score: 117

ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAGgtatccatgc ... gatgttacagGTGTTGCAATGCCTCTCTGGTCAAGGTTTGACTTCATCAGGTGGTAGTGGTCATGTAGGAAGTGATGGTGGCAATAGCAGTGGAGCTTCAAGAACAGCTG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 190

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 228