ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTCGTTTACTTTTGATAAAGTATTTGATCATTCGGCGTCACAAGAACATGTGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatttgtatgactataactgagattaccttctctaactctagtaactatgatttttttggttcgttttccaatatctagttttcttagaatgcaactaaaaaccagtaaaccatttag

Basic information

species	Zea mays
transcript	GRMZM2G436981_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G436981_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os07g01490.2 (Oryza sativa), 5'ss of exon 4

TTCGTTTACTTTTGATAAAGTATTTGATCATTCGGCGTCACAAGAACATGTGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatttgtatgactataact---gagattaccttctctaactctagtaactatgatttttttggttcgttttccaatatctagttttcttagaatgcaactaaaaaccagtaaaccatttag
||| || || ||||| ||||||||||| || ||||| ||||||||| |||||||||| || || || |||||  ||||||| ||||| |||||||| ||||||     |   | |  || |   |   ||  |          |||     ||     ||          |   |    || |  |||| ||  ||    |     |  ||   | |||| | | ||
TTCTTTCACATTTGACAAAGTATTTGAGCAGTCGGCATCACAAGAAGATGTGTTCATTGAGATTTCCCAACTCATCCAAAGCGCCCTTGATGGCTACAAGgtaacatttacttgttgctgtgttttgagaagtgcaagagcacaacctcgctataggagagggaaaaaagtttgtccataaaagttagtatttataattcgtgctaactaatgtgaaaacaactcag

upper sequence: GRMZM2G436981_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os03g64415.1 (Oryza sativa), 5'ss of exon 2

TTCGTTTACTTTTGATAAAGTATTTGATCATTCGGCGTCACAAGAACATGTGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatttgtatgactataact---gagattaccttctctaactcta--gtaactatgatttttttggttcgttttccaatatctagttttcttagaatgcaactaaaaaccagtaaaccatttag
||  || || ||||| ||||||||||| || ||| | ||||||||| |||||||||| || || || || || ||||| || ||||| |||||||| ||||||     |   | |  || |   |   ||  |          ||| | |   ||    ||        | ||   |   ||| |  |||| |   ||    |        ||   | |||| | | ||
TTTCTTCACATTTGACAAAGTATTTGAGCAGTCGACATCACAAGAAGATGTGTTCATTGAGATTTCCCATCTCGTCCAGAGCGCCCTTGATGGCTACAAGgtaacatttacttgtcgctgtgctttgagaagtgcaagagcacaaccccactataggagtgggaaaaaagtttaagtccacaaaagttagtatctataattcgtgctagctaatgtgaaaacaactcag

upper sequence: GRMZM2G436981_T01 (Zea mays), 5'ss of exon 10
lower sequence: EFJ36382 (Selaginella moellendorffii), 5'ss of exon 10

TTCGTTTACTTTTGATAAAGTATTTGATCATTCGGCGTCACAAGAACATGTGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatttgtatgactataactgagattaccttctctaactctagtaactatgatttttttggttcgttttccaatatctagttttcttagaatgcaactaaaaaccagtaaaccatttag
 |  ||| |||| || ||||| |||| || |    |    |||||    ||||| | |||||||||||||||||| |||||||| || ||||| || ||||    |||||   |  |   || ||     |  || ||   ||||   | |  |  | ||    |                                                           
CTTCTTTTCTTTCGACAAAGTGTTTGGTCCTGAAACTGGCCAAGAGAGCGTGTTTACAGAAATATCTCAACTTGTGCAAAGTGCTCTGGATGGATACAAGg----tcattaagaaaagcgtatct-----tttctactgccactcatatga--aacacttcgcag-----------------------------------------------------------

upper sequence: GRMZM2G436981_T01 (Zea mays), 5'ss of exon 10
lower sequence: EFJ35821 (Selaginella moellendorffii), 5'ss of exon 10

TTCGTTTACTTTTGATAAAGTATTTGATCATTCGGCGTCACAAGAACATGTGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatttgtatgactataactgagattaccttctctaactctagtaactatgatttttttggttcgttttccaatatctagttttcttagaatgcaactaaaaaccagtaaaccatttag
 |  ||| |||| || ||||| |||| || |    |    |||||    ||||| | |||||||||||||||||| |||||||| || ||||| || |||||| || |             |    ||  || ||| ||||   | | | | ||||||     ||   |  ||  ||                                               
CTTCTTTTCTTTCGACAAAGTGTTTGGTCCTGAAACTGGCCAAGAGAGCGTGTTTACAGAAATATCTCAACTTGTGCAAAGTGCTCTGGATGGATACAAGgta-atta-------------agaaaagcgtatcttttctactgccactca-tatgatgacgctgtaacacttcgcag----------------------------------------------

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|32933351|gb|CF038163.1|CF038163

EST:     TGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAG                         GTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG
genomic: TGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatt ... aaccatttagGTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG

EST: gi|71437937|gb|DR818987.1|DR818987

EST:     CCTAGATGGCTATAAG                         GTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG
genomic: CCTAGATGGCTATAAGgtatatcatt ... aaccatttagGTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG

EST: gi|32932235|gb|CF037047.1|CF037047

EST:     TGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAG                         GTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG
genomic: TGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatt ... aaccatttagGTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG

EST: gi|76916489|gb|DV166411.1|DV166411

EST:     TGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAG                         GTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG
genomic: TGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatt ... aaccatttagGTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATG

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), 47 (downstream exon)
Score: 144

TTCGTTTACTTTTGATAAAGTATTTGATCATTCGGCGTCACAAGAACATGTGTTCATAGAAATATCTCAACTTGTCCAAAGTGCCCTAGATGGCTATAAGgtatatcatt ... aaccatttagGTCTGCATATTTGCCTATGGGCAAACTGGTTCTGGTAAAACATATACAATGATGGGCAACCCTGAGTTAGAAGATCAAAAAGGAATGATACCACGATCTC

Block sizes: 37 (upstream exon), 45 (downstream exon)
Score: 11

Block sizes: 49 (upstream exon), 42 (downstream exon)
Score: 10