ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAGGCGGCGATATAGCAGAAGCCGTAGTAGGAGCAGAAGCCCAAGAAGGTACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatcagcgttagtttaactagagctccgattggaaatccacactactcttttagttagcagctgaaagaatgatgatactgcag

Basic information

species	Zea mays
transcript	GRMZM2G022061_T05
intron #	12
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G022061_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os03g27840.1 (Oryza sativa), 5'ss of exon 12

AAGGCGGCGATATAGCAGAAGCCGTAGTAGGAGCAGAAGCCCAAGAAGGTACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgta----ggtaatcagcgttagtttaactagagctccgattggaa--atccacactactcttt--tagttagcagctgaaagaatga---tgatactgcag
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AAGGCGACATTATAGCAGAAGCCGTAGTAGGAGTAGAAGTCCAAGGAGGTACCATTCACGATCCCAGTCTCATTCCCGTTCGCCTTCTCGCTCTCCAAGgtaatttagcaagcgtagttatttcgaatcagatgccgaacatccctatccctgctacttgttactagatagcatctgaaatagtaaatatggccctgcag

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|6918688|gb|AW400218.1|AW400218

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|93012252|gb|EB637772.1|EB637772

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|161584781|gb|EY954043.1|EY954043

EST:     CGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG
genomic: CGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|89250973|gb|DY622759.1|DY622759

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|67024598|gb|CO453347.1|CO453347

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCA-G                         GTACCGAAGCANGGTCA-GACACTGAAAATATCCANGCAGCCACTAACAA-
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCA-GGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAA

EST: gi|37385048|gb|CF629639.1|CF629639

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACATAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|211251413|gb|FL479559.1|FL479559

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|28987293|gb|CB351559.1|CB351559

EST:     AGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACCCTGAAAATATCCAGGCAGCCCCTAACAAAG
genomic: AGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|40335728|gb|CK369798.1|CK369798

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACATAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|37388853|gb|CF631641.1|CF631641

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|94473364|gb|EB702322.1|EB702322

EST:     TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCCCTAACAAAG
genomic: TACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

EST: gi|113777294|gb|DW893575.1|DW893575

EST:     CTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAG                         GTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG
genomic: CTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAG

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), 43 (downstream exon)
Score: 129

AAGGCGGCGATATAGCAGAAGCCGTAGTAGGAGCAGAAGCCCAAGAAGGTACCGATCCCGCTCGCTCTCCAGTTCCCGGTCGCCCTCTCGCTCTCCAAGgtaggtaatc ... gatactgcagGTACCGAAGCAGGTCAAGACACTGAAAATATCCAGGCAGCCACTAACAAAGTGCCTTGCCATGTTGTAGTTAATTTATTTTATAGACTTTTTCATTCCTG

Block sizes: 46 (upstream exon), 44 (downstream exon)
Score: 73

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 112