ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTCCAAATCAAGAGTATCACTGAAACATGTCACACATCTAGTGCGACTTGACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaacgaaacagtggaatgtcatgtcacctgcctaaggtaaaccaaaataattatttgttagtaggaacgtaggtgattgatatgctacctt

Basic information

species	Zea mays
transcript	GRMZM5G813987_T01
intron #	1
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|166434681|gb|EG159701.1|EG159701

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACACAGGAGCAGCCTACAACCTTCCTTGCCTTG
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTG

EST: gi|8577145|gb|BE129782.1|BE129782

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC

EST: gi|88749830|gb|DY533971.1|DY533971

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAAAGTC
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC

EST: gi|113667940|gb|DW814894.1|DW814894

EST:     CACCGTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC
genomic: CACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC

EST: gi|113668293|gb|DW815655.1|DW815655

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCC
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCC

EST: gi|113660802|gb|DW819561.1|DW819561

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACGCAG
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAG

EST: gi|78112080|gb|DV530476.1|DV530476

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC

EST: gi|32852317|gb|CD991998.1|CD991998

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCCTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC

EST: gi|113632328|gb|DW789452.1|DW789452

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTT
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTT

EST: gi|4688381|gb|AI637051.1|AI637051

EST:     ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTT                         GACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC
genomic: ACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTC

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 2 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 26 (downstream exon)
Score: 2

GTCCAAATCAAGAGTATCACTGAAACATGTCACACATCTAGTGCGACTTGACATACTCCTGCACTATGTTAAGGCCCTCAGATTCTTCACCGTAGTCCTGataattgaaa ... atgctaccttGACGACGACGCAGGAGCAGCCTACAACCTTCCTTGCCTTGCCCTCAGAGTCAATCTTGCAAAG