ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

AACACACATTAAAGTAACTGAGTTTGTCAGAGACAAAGATTGCCTTGTATGTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttccaatgccaaaacctcaccagtcagtggagaaaaattgttattgcatgagcattttttccaccaggattaccttattaaaattcctcatattc...

Basic information

species	Zea mays
transcript	GRMZM2G007915_T02
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G007915_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g16540.1 (Oryza sativa), 5'ss of exon 8

AACACACATTAAAGTAACTGAGTTTGTCAGAGACAAAGATTGCCTTGTATGTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttccaatgccaaaacctcaccagtcagtggagaaaaattgttattgcatgagcat-tttttccaccaggattaccttattaaaatt-cctcatattc
|||||||||||| ||||  || ||||  ||||| ||||| |||||||||||||| |||||||||||| |||| || |  || ||  |||| || ||||| || |||   |    ||| ||||    | |  || |||||    || | |  ||||| ||  |||     | ||  | || ||  ||   |  || |||| ||
AACACACATTAATGTAAGCGAATTTGCAAGAGAGAAAGACTGCCTTGTATGTGGACCTGGTACCCTTATTGAACTTGGGACATCGACTACCCTCTCAGAGgtcagtaatacactcaataccttgtaactatgttgagaatttctgatgt--catgaacacgtttccttgctagactcactttgctagcttagccacataatc

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|76917086|gb|DV166672.1|DV166672

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAG
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATC-AAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAG

EST: gi|67018949|gb|CO447698.1|CO447698

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|148940270|gb|EC885046.2|EC885046

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|88749824|gb|DY533965.1|DY533965

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|7119032|gb|AW497574.1|AW497574

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCNTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|5650371|gb|AI920731.1|AI920731

EST:     CCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: CCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|211182135|gb|FL382091.1|FL382091

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|78124195|gb|DV542579.1|DV542579

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|5525843|gb|AI861736.1|AI861736

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|71419961|gb|DR804957.1|DR804957

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|60398591|gb|DN231407.1|DN231407

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|211514449|gb|FL429035.1|FL429035

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|71760307|gb|DR958244.1|DR958244

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|5847480|gb|AW000559.1|AW000559

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|78116519|gb|DV534906.1|DV534906

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|87156356|gb|DY401145.1|DY401145

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|71311092|gb|DR791860.1|DR791860

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|149099068|gb|EE185088.2|EE185088

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|76287586|gb|DV027154.1|DV027154

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|67017410|gb|CO446159.1|CO446159

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|148929148|gb|EC874604.2|EC874604

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|5901235|gb|AW042335.1|AW042335

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|4776276|gb|AI665279.1|AI665279

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|60395495|gb|DN228365.1|DN228365

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

EST: gi|71431173|gb|DR812223.1|DR812223

EST:     GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGAT                         TTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC
genomic: GTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGC

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: 193

AACACACATTAAAGTAACTGAGTTTGTCAGAGACAAAGATTGCCTTGTATGTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttcca ... tgattgacagTTCATCAAGATGCTTGAAGAGCACCCCAAGTTGCGGATGTCGAAAGCCAGCGTGACGCACGAAGGTAACAACCTGTACATGCAGTCACCGGAGGTGCTGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 125

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 154

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 164

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns

        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACACACATTAAAGTAACTGAGTTTGTCAGAGACAAAGATTGCCTTGTATGTGGGCCTGGTACCCTTGTTGAGCTGGATACGTCATCTACTCTTTCAGATgtgagttccaatgccaaaacctcaccagtcagtggagaaaaattgttattgcatgagcattttttccaccaggattaccttattaaaattcctcatattc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagaaaaa