ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtaaattgtttggaatgaaatagctgtagttaaatgtagacaatatcctacttgttaatatctaaccaaagaactatgacacatactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGACAACGTGTGACCCTCATGCTCAACGTATCATTACTTCGTCCGAGTCTCCT

Basic information

species	Zea mays
transcript	GRMZM2G146951_T01
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G146951_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os08g17370.1 (Oryza sativa), 3'ss of exon 4

gtaaattgtttggaatgaaatagctgtagttaaatgtagacaatatcctacttgttaata--tctaaccaaagaactatgacacatactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGACAACGTGTGACCCTCATGCTCAACGTATCATTACTTCGTCCGAGTCTCCT
            | | |   | |  ||| ||  |||| |||  | |||| | || |  ||  | ||  | || |||||||||| || |||||||||||| |||||||| ||||| || |||||||| ||||||||||||||||| || ||||| ||||||||  ||| ||| ||||| || || || ||||| 
------------gtaggcctttgaagtatttggatgttgac--tgtccttcctgctgttaaatttacactaaaaactatgacatatgctgcagCGTTAAACATGAATACGAAGGACAGTGGAATGACAAGAAGACCCGCCTGACCACTTGTGATCCTCATGCAAAACATATAATTACATCATCTGATTCTCCC

upper sequence: GRMZM2G146951_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G34020.1 (Glycine max), 3'ss of exon 5

------------gtaaattgtttggaatg--aaatagctgtagttaaatgtagacaatatcctacttgttaatatctaaccaaagaactatgacacatactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGACAACGTGTGACCCTCATGCTCAACGTATCATTACTTCGTCCGAGTCTCCT
            ||   |  ||||   ||  || | | |  | || ||   |     | |  ||     || |   |  ||||| |   |||   |    ||||| ||||| ||||||| ||||||| | ||| |||| ||||  |||||  ||||||| ||||||||||||||| |||  |   ||      ||| |   ||||
gtcagtatttttgtgcttgctttgttctgttaagttgttcca-tttaacagatgtggt-ttgtatgcaatagtgattttccaaatacgaatgttgctg--tgcagTGTTAAACATGAATTTGAAGGGAAGTGGGATGAAAAGACCACCCGTTTGACAACCTGTGACCCTCATGCTAAACACACAGTTGTCAATTCCAACAGTCCT

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|78115833|gb|DV534221.1|DV534221

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGAAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|149012081|gb|EE042501.2|EE042501

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTG
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTG

EST: gi|22491002|gb|BU050925.1|BU050925

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|31353915|gb|CD438272.1|CD438272

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|148999936|gb|EE036993.2|EE036993

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|148971253|gb|EE022114.2|EE022114

EST:     AGCAAAGGGATGTTTCCAGGATTGTGGCCTTTTGA-GTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: AGCAAAGGGATGTTTCCAGGATTGTGGCCTTT-GAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|109637563|gb|EC591108.1|EC591108

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAACTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|149080734|gb|EE169796.2|EE169796

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|91871350|gb|EB401373.1|EB401373

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

EST: gi|19437149|gb|BM953559.1|BM953559

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGAT
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGAT

EST: gi|149023680|gb|EE045933.2|EE045933

EST:     GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAG                         CGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC
genomic: GAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGAC

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: 287

AATACTTCATCCACAACCATCTATCTTTTACGGTGAAATATCACAGGGATGAGCAAAGGGATGTTTCCAGGATTGTGGCCTTTGAAGTGAAACCATACAGgtaaattgtt ... catactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGACAACGTGTGACCCTCATGCTCAACGTATCATTACTTCGTCCGAGTCTCCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 382

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 435

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1538

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tagacaatatcctacttgttaatatctaaccaaagaactatgacacatactgcagCGTTAAGCATGAATATGAAGGGCAATGGAATGATAAGAAGACCCGCCTGACAACGTGTGACCCTCATGCTCAACGTATCATTACTTCGTCCGAGTCTCCT