ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGAACCATCCAATGAGAAATCTGATGTCTATAGCTTCGGTGTTATCCTATGGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAGgtaacttcattatccggtagcggcattgataaagcaacacatgcactcatggtgactatcaaatgcatcaagaacacattttgtgctcatggacatacaacaacacacgaagtgatgcataccattactctctttatcctcagttttgtatatggctatatgctattctgcag

Basic information

species	Zea mays
transcript	GRMZM2G036902_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G036902_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g39320.1 (Oryza sativa), 5'ss of exon 14

TGAACCATCCAATGAGAAATCTGATGTCTATAGCTTCGGTGTTATCCTATGGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAGgtaact------------tcattatccggtagcggcattgataaagcaacacatgcactcatggtgactatcaaatgcatcaagaacacattttgtgctcatggacatacaacaacacacgaagtgatgcataccattactctcttta-----tcctcagttttgtatatggctatatgctattctgcag
|||||||||||||||||||||||||||||| || || ||||| |||||||||||||| |||||| ||||||||||||||||||| ||||||||||||||||||| |              | | |   ||  |     |||| |||  |  ||   | || | |  |  ||  |||||||  | |||| |||||       | ||   |     || |  ||||| ||||| | ||||  | |    |        | |   || || |||    |||| | ||||||||
TGAACCATCCAATGAGAAATCTGATGTCTACAGTTTTGGTGTAATCCTATGGGAACTTATGACAATGCAACAACCATGGTGTAATCTGAATCCTGCCCAGgtaattattcccttctatctaattttttgtgtccatgctgatgaagtgatgcaattagtccttggtatcattcaatgcatgcataacatatttttcttatctagaagcaagtatactcctgaagttatgcagatcattttttttaaaaaaaaacttttaccattttacatgatgctatgtttttctgcag

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|40337056|gb|CK371126.1|CK371126

EST:     GGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAG                         GTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGAT
genomic: GGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAGgtaacttcat ... tattctgcagGTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGAT

EST: gi|89249591|gb|DY621377.1|DY621377

EST:     GGGAACTAATGACACTCCAACAACCATGGTGTAACCTGAATCCTGCCCAG                         GTGGTTGCTGCTGTAGGTTTCAAAGGAAGAGGGCTTGAAATCCCAAAAGAT
genomic: GGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAGgtaacttcat ... tattctgcagGTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGAT

EST: gi|37397514|gb|CF636057.1|CF636057

EST:     GGGAACTAATGACACTGCAACAACCATGGTGTACCCTGAATCCTGCCCAG                         GTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGAT
genomic: GGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAGgtaacttcat ... tattctgcagGTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGAT

EST: gi|6626443|gb|AW257975.1|AW257975

EST:     GGGAACTAATGACACTGCAACAACCATGGTGGAACCTGAATCCTGCCCAG                         GTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGAT
genomic: GGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAGgtaacttcat ... tattctgcagGTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGAT

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: 46 (upstream exon), 49 (downstream exon)
Score: 80

TGAACCATCCAATGAGAAATCTGATGTCTATAGCTTCGGTGTTATCCTATGGGAACTAATGACACTGCAACAACCATGGTGTAACCTGAATCCTGCCCAGgtaacttcat ... tattctgcagGTGGTTGCTGCTGTAGGTTTCAAAGGAAGAAGGCTTGAAATCCCAAAAGATCTGAATCCTCTAGTAGCCGTATTAATTGAATCTTGCTGGGCCAA

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 74

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 130