ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGAAGTTTGTCAACAGAAGGAATCAGTAGGCGATGGCACCGTTGATATTGACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtacttctaatttgtgttgaccctcaaaaagggatgggttttgggcatctttgtcatggctctgggctctggcttactgtcatgtttcgcaatgcag

Basic information

species	Zea mays
transcript	GRMZM2G138886_T01
intron #	5
splice site	5'
intron type	U2

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|211249469|gb|FL156689.1|FL156689

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|148972285|gb|EE023184.2|EE023184

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|211249468|gb|FL156688.1|FL156688

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|76283026|gb|DV022594.1|DV022594

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|211249467|gb|FL156687.1|FL156687

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|50324450|gb|CO519576.1|CO519576

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|76294034|gb|DV033602.1|DV033602

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|211004196|gb|FK981412.1|FK981412

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAAACA-G-ACATTATGANCGAAGATGA-TTNGCTCATGG
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAA-CAAGGACATTATGAACGAAGATGAATT-GCTCATGG

EST: gi|71439376|gb|DR820426.1|DR820426

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|30307157|gb|CD001830.1|CD001830

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|149081651|gb|EE170801.2|EE170801

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAA
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|211249460|gb|FL156680.1|FL156680

EST:     ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATG                         G-TGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: ACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

EST: gi|61118386|gb|DN559347.1|DN559347

EST:     TAGTGATAGTGACATCGACATG                         GGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT
genomic: TAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGAT

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: 310

CGAAGTTTGTCAACAGAAGGAATCAGTAGGCGATGGCACCGTTGATATTGACGTGGAACTCTACGAGCTGGTCGACGGTAGTGATAGTGACATCGACATGgtacttgtac ... cgcaatgcagGGTGCGACAGAGAACAAGGACATTATGAACGAAGATGAATTGCTCATGGATATTGACAGTGCAGACTCGGGGAACCCGCTTGCTGCAACAGAATATGTTA

Block sizes: 49 (upstream exon), 43 (downstream exon)
Score: 14

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 24

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 49

Data associated with selected splice site

Sequence

Basic information

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

RNA-Seq data