ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACTGGAAGGCGGGCGTGTCGACCGAAGTGGTAAGCCTGTACGAGGGCGACGAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccagctttcactgtccttccctcgatgtatgcacgcaccaatcttgactcgaacctgctgctgctggtgcag

Basic information

species	Zea mays
transcript	GRMZM2G044851_T01
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G044851_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g46460.2 (Oryza sativa), 5'ss of exon 3

ACTGGAAGGCGGGCGTGTCGACCGAAGTGGTAAGCCTGTACGAGGGCGACGAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccagctttcactgtccttccctcgatgtatgcacgcaccaatcttgactcgaacctgctgctgctggtgcag
|||||||||| |||| |||| | |  |  || |  || |||||| ||||||||||||||||| ||||||| |||||||| ||||||||| |||| ||||||||        | |   | |     |   ||  |   ||||||   |    |    ||||  ||      |  |||||
ACTGGAAGGCCGGCGAGTCGCCGGGCGCCGTGACACTCTACGAGAGCGACGAGAAGGCGGATTCCGGTGGGAGGAAGCTCCTGCACACGGAAGGTTTCAGgtaaagtgttgtgtggttttgtgagctgtgaactgatcacgcatgcac---gcactgaactcgccatg--tattgcag

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|71424537|gb|DR806350.1|DR806350

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|71314198|gb|DR793713.1|DR793713

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|76927973|gb|DV171442.1|DV171442

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|74240218|gb|DT648132.1|DT648132

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|71417412|gb|DR804041.1|DR804041

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|86474662|gb|DY241032.1|DY241032

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|50328863|gb|CO523989.1|CO523989

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|148987144|gb|EE030972.2|EE030972

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

EST: gi|78123381|gb|DV541765.1|DV541765

EST:     GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAG                         TTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG
genomic: GAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCG

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), 49 (downstream exon)
Score: 42

ACTGGAAGGCGGGCGTGTCGACCGAAGTGGTAAGCCTGTACGAGGGCGACGAGAAGGCGGATGCCGGTGGCAGGAAGCTTCTGCACACGCAAGGGTTCAGgtaggtccag ... gctggtgcagTTTCTTGGACCGCGCGGCGCACGCGGACACTGACTCCAAGCTCGGCGCGCGCGATCCCTGGAAGCTGTGCTCGGTGACGCAGGTGGAGGAGGTCAAGAGC