ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTGTAAATTTGGTGCAGTGTGCAAGTTCCATCATCCCCGTGTGAGATCACAGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgttaaacccttcactctttctgtttcattttgttttagaattacactgtttctgttgtattgatcctttgtttagacattttatccattatat...

Basic information

species	Zea mays
transcript	GRMZM2G107491_T02
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G107491_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g68860.3 (Oryza sativa), 5'ss of exon 5

TTGTAAATTTGGTGCAGTGTGCAAGTTCCATCATCCCCGTGTGAGATCACAGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt--aaacccttcactctttctgtttcattttgttttagaattacactgtttctgttgtattgatcctttgtttagacatt-ttatccattatat
 |||||||||||||| ||||||||||||||||||||||| ||| |||||  |||  |||| ||||||||||| |||||| ||||||||||| ||||||| |||||||  |  ||||| ||   |  || |||| || |     |||   ||    |  |  ||||  |   |||  ||   |   |||  ||   |||| || 
CTGTAAATTTGGTGCGGTGTGCAAGTTCCATCATCCCCGGGTGCGATCAATGCCTACTCCAGATTGTGTCTTGAGTCCAGTGGGTCTTCCACTACGTCCGgtaagttactacaaacctttttgtacttatgttccagtgacaattat--ttgtgtt-ctcatgttccacgtatcactttaatgttcatggttgatcattgtac

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|32842295|gb|CD981976.1|CD981976

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGCCTTCCAATACGTCCA                         GGTGAAGAACTGTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32839671|gb|CD979352.1|CD979352

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGCCTTCCAATACGTCCA                         GGTGAAGAACTGTGCAAATTCTATTCTCGCTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32836606|gb|CD976284.1|CD976284

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGCCTTCCAATACGTCCA                         GGTGAAGAACTGTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32920863|gb|CF025675.1|CF025675

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCA                         GGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32842543|gb|CD982224.1|CD982224

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGCCTTCCAATACGTCCA                         GGTGAAGAACTGTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|24934304|gb|CA452522.1|CA452522

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCA                         GGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32921366|gb|CF026178.1|CF026178

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCA                         GGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32837496|gb|CD977174.1|CD977174

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGCCTTCCAATACGTCCA                         GGTGAAGAACTGTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|76290171|gb|DV029739.1|DV029739

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCA                         GGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32921013|gb|CF025825.1|CF025825

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCA                         GGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32920651|gb|CF025463.1|CF025463

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCA                         GGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

EST: gi|32838677|gb|CD978355.1|CD978355

EST:     AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGCCTTCCAATACGTCCA                         GGTGAAGAACTGTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC
genomic: AGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGC

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: 56

TTGTAAATTTGGTGCAGTGTGCAAGTTCCATCATCCCCGTGTGAGATCACAGCCCCCTCCGGATTGTGTCTTAAGTCCAATGGGTCTTCCAATACGTCCAgtaagttgtt ... tggtttttagGGTGAAGAACTTTGCAAATTCTATTCTCGTTATGGCATCTGCAAGTTCGGCGCCAACTGTAAATTTGATCATCCTACAATGGCTGCTCCAATGGGAGTTT

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 42

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 65