ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCGGGCAGCTGAAGAGCATGGAGATTTGGCTCTTATCACTGTTGAAGCTCCCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacattcagtgtgatggatgcttttagtgcccattttctttattgatatgctgttttctgacttcgtaagtgttatctgaagttagtgtataataa...

Basic information

species	Zea mays
transcript	GRMZM5G824843_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G824843_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g46510.2 (Oryza sativa), 5'ss of exon 15

TCGGGCAGCTGAAGAGCATGGAGATTTGGCTCTTATCACTGTTGAAGCTCCCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacattcagtgtgatggatgcttttagtgcccattttctttat-tgatatgctgttttctgacttcgtaagtgttatctgaagttagtgtataataa-
|||||| |||| |||||||||||||||||||||||| || |||||||  ||| ||  |||      ||| ||| || | || || || |||||||||||||||     |||    |  | |||   ||| || ||  || |  |||| |  | |  | |||| ||   |  ||| |||||| |||||| ||| |  | ||| 
TCGGGCGGCTGCAGAGCATGGAGATTTGGCTCTTATTACAGTTGAAGGCCCCAAGACTACCACTTCTGAGAAAATAGCTTTAAGACCTCCAATGTTGCAGgtacagttttctacattcttgatttcttttgtaccgtttctacttatatactgttttcttttgtgttcttctaa-tgttatttgaagtcagttt-cagtaat

upper sequence: GRMZM5G824843_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA03G38530.1 (Glycine max), 5'ss of exon 15

TCGGGCAGCTGAAGAGCATGGAGATTTGGCTCTTATCACTGTTGAAGCTCCCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgt----atgacattcagtgtgatggatgcttttagtgcccattttctttattgatatgctgttttctgacttcgtaagtgtta-tctgaagttagtgtataataa
  | ||||  | |||||||||||| || || || || ||||| |||| |  ||||  | |   |   |||| | || |||||||||||||||||||||||||    |   | ||||   |  |       | |       |||  |   ||| |  |||  ||||     ||| | ||  ||| | |   |||  || |||    
AAGAGCAGTGGCAGAGCATGGAGAGTTAGCACTAATTACTGTAGAAGGTATCCAGTCTGCCAAGGAAGAAAGAATAGCATTGAGGCCACCAATGTTGCAGgttaccaaagctttcaactttgtat-catctatgaaaatgattgccaacattca-gtgccatttttgtctttcctcagatttaatattttgtttctggatat---

upper sequence: GRMZM5G824843_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA19G41130.2 (Glycine max), 5'ss of exon 11

TCGGGCAGCTGAAGAGCATGGAGATTTGGCTCTTATCACTGTTGAAGCTCCCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgt----atgacattcagtgtgatggatgcttttagtgcccattttctttattgatatgctgttttctgacttcgtaagtgttatctgaagttagtgtataataa
  | ||||  | |||||||||||| || || || || ||||| |||| |  ||||  | |   |   |||| | || |||||||||||||||||||||||||    |   | ||||   |  |       | | |     |||| |   ||| | |  || |||| |   | |  |  | | || |   |||  |  |||    
AAGAGCAGTCGCAGAGCATGGAGAGTTAGCACTAATTACTGTAGAAGGTATCCAGTCTGCCAAGGAAGAAAGAATAGCATTGAGGCCACCAATGTTGCAGgttaccaaagctttcaactttgtat-catctatggaaattatttccaacattcagagccttttttgtctttcctcagatttaatattttgtttcttgatat---

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|31364251|gb|CD448606.1|CD448606

EST:     CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAG                         GTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA
genomic: CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacatt ... tctgttccagGTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA

EST: gi|211541873|gb|FL034149.1|FL034149

EST:     CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAG                         GTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA
genomic: CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacatt ... tctgttccagGTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA

EST: gi|211541872|gb|FL034148.1|FL034148

EST:     CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAG                         GTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA
genomic: CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacatt ... tctgttccagGTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA

EST: gi|211538865|gb|FL034144.1|FL034144

EST:     CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAG                         GTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA
genomic: CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacatt ... tctgttccagGTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA

EST: gi|211541869|gb|FL034145.1|FL034145

EST:     CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAG                         GTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA
genomic: CCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacatt ... tctgttccagGTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATA

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: 96

TCGGGCAGCTGAAGAGCATGGAGATTTGGCTCTTATCACTGTTGAAGCTCCCCAGGTTACTGTGAGTGAAAAAGTATCATTGAGGCCACCAATGTTGCAGgtatgacatt ... tctgttccagGTTGTTCGTTTAGCCTCCTTTCAGTACGCTCCATCGATACCACCATTTATAGTACCAAAGCAATCCAAGTTCGATGGAGATGATTCAGTGTTTCAGAAAG

Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 94

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 73