ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTGTTCCCCCTTGTTAAGAATCAAGAGTTTGACGATGCTGCCAAAGTAATCGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaatacaatcttaaataccccactccgtataacgtaactatatatatgtaagcataagctcgtggttgttctcttgcag

Basic information

species	Zea mays
transcript	GRMZM5G821551_T03
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G821551_T03 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 5'ss of exon 8

GTGTTCCCCCTTGTTAAGAATCAAGAGTTTGACGATGCTGCCAAAGTAATCGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgca--atacaatcttaaatac-cccact-ccgtataacgtaactatatatatgtaagca------------------taagctcgtggttgttctcttgcag--------------------------------------------------------------------------
||||||||||| || |||||||| ||||||||||| ||||| ||||| || |  || ||||||||||| || || ||||| || ||||||||||||||||||||||  |  |||  |   ||  | | ||||||   |  | | |  | |||  | || |||                     | || |     || ||  | ||  |                                                                          
GTGTTCCCCCTGGTGAAGAATCAGGAGTTTGACGACGCTGCGAAAGTTATTGATAAAGCATTAACAACAGCAGGCATCTCGCATATTATTGACACTACTGgtacgtatataatatgaaaatagcttctcccactgttgcttgaagatattattaacatctaattgacaataaagaaaaacatctgagttaaaaattattaccatgttgggaagtgtaatatgcaaattcatgctagtttatgcattactctatgagcttatgtatgtcatgtgcttgtgcag

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|32806514|gb|CD958748.1|CD958748

EST:     AACTGCTGGTATCTCCCACATTATTGACACTACTG                         CAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATC
genomic: AACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATC

EST: gi|32945629|gb|CF050448.1|CF050448

EST:     CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTG                         CAATTTCTATTGGGAGGAGGT
genomic: CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGT

EST: gi|32825878|gb|CD965556.1|CD965556

EST:     TAACAACTGCTGGTATCTCCCACATTATTGACACTACTG                         CAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATC
genomic: TAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATC

EST: gi|86465963|gb|DY232336.1|DY232336

EST:     CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTG                         CAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATCGGTGTTTCAT
genomic: CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATCGGTGTTCCAT

EST: gi|32850719|gb|CD990400.1|CD990400

EST:     CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTG                         CAATTTCTATTGGGAGGAGGTA
genomic: CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGTA

EST: gi|60395019|gb|DN227888.1|DN227888

EST:     CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTG                         CAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATCGGTGTTCCAT
genomic: CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATCGGTGTTCCAT

EST: gi|32867016|gb|CF006698.1|CF006698

EST:     CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTG                         CAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATCGGTGTTCCAT
genomic: CGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATCGGTGTTCCAT

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), 44 (downstream exon)
Score: 90

GTGTTCCCCCTTGTTAAGAATCAAGAGTTTGACGATGCTGCCAAAGTAATCGCCAAGGCATTAACAACTGCTGGTATCTCCCACATTATTGACACTACTGgtacgtgcaa ... tctcttgcagCAATTTCTATTGGGAGGAGGTACGCCAGGACGGATGAGATCGGTGTTCCATTTGCTGTAACAGTGGATTCGGCAACGAACGTGACGATCCGAGAGAGGGA

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 63

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 66