ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AATGAGCCTACCGCCGCATCACTAGCATATGGTTTTGAGAAAAAGAACAATGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcctgtttggtgtttctgtgaatacatactcgtgattttcggtgcaatgcttacccctataggaggtttaacagatactctaaccttttgtct...

Basic information

species	Zea mays
transcript	GRMZM2G079668_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G079668_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g23740.1 (Oryza sativa), 5'ss of exon 2

AATGAGCCTACCGCCGCATCACTAGCATATGGTTTTGAGAAAAAGAACAATGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcctg----tttggtgtttctgtgaatacatactcgtgattttcggtgcaatgcttaccc--ctataggaggtttaacagatactctaaccttttgtct-
|| |||||||| || |||||  | |||||||| ||||| || ||||||||||| || ||||| ||||||||||| ||||| ||||| || |||||||||||||||| ||||     |  ||||  | | |||| || || | |  | |       |||   ||| ||   ||| |  | ||||||   || |   | |||||  |  
AACGAGCCTACTGCAGCATCTTTGGCATATGGGTTTGAAAAGAAGAACAATGAGACCATTCTTGTTTTTGACCTGGGAGGAGGCACATTTGATGTTTCAGgtatctatcctacaattacggtgcctttctgaacac-tatttgcaact------acaagttttaaccagttattgttgttttaaccactatttgcatcttttcacgt

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|149109009|gb|EE293094.2|EE293094

EST:     TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAG                         TTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA
genomic: TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA

EST: gi|71446645|gb|DR827695.1|DR827695

EST:     TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAG                         TTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA
genomic: TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA

EST: gi|19058069|gb|BM736736.1|BM736736

EST:     ACCTTTGATGTTTCAG                         TTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA
genomic: ACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA

EST: gi|87153250|gb|DY398039.1|DY398039

EST:     TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTTGATGTTTCAG                         TTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA
genomic: TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA

EST: gi|71761337|gb|DR959274.1|DR959274

EST:     TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAG                         TTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA
genomic: TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA

EST: gi|22490415|gb|BU050338.1|BU050338

EST:     TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTTGATGTTTCAG                         TTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA
genomic: TGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA

EST: gi|78080017|gb|DV508429.1|DV508429

EST:     AACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAG                         TTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA
genomic: AACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACA

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: 48 (upstream exon), 49 (downstream exon)
Score: 90

AATGAGCCTACCGCCGCATCACTAGCATATGGTTTTGAGAAAAAGAACAATGAAACAATTCTGGTTTTTGACCTCGGAGGTGGCACCTTCGATGTTTCAGgtatctgtcc ... gatatttcagTTCTTGAAGTCGGTGATGGTGTTTTCGAGGTGCTGTCTACATCAGGTGACACTCACCTTGGTGGTGATGACTTTGACAAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 360

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 44