ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AATTGCTTGGCTACCATCTCCTTACTTTTGTTTGCCATGGTCTCATATTCGCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctcacctcagtatcataacttgttcgaacttgtaaaagatactagtttgtccgttgctagttggatgggcaatatactaacttcatggcgtgaaattctgggcattaattcag

Basic information

species	Zea mays
transcript	GRMZM2G159388_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G159388_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g12650.1 (Oryza sativa), 5'ss of exon 2

AATTGCTTGGCTACCATCTCCTTACTTTTGTTTGCCATGGTCTCATATTCGCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaaga---tctcacctcagtatcataacttgttcgaacttgtaaaagatactagtttgtccgttgctagttggatgggcaatatactaacttcatggcgtgaaattctgggcattaattcag
|||||||||||||||| ||||| ||||| ||||||||||| ||||||||| |  ||||| |||||||||||||||| ||||| ||||| |||||  ||||||||||   | |  | ||  ||||| ||||||||| |  ||    ||   |  |   ||| |      || | |||    | || |  ||    | | |   ||| | ||  | ||  |||||
AATTGCTTGGCTACCACCTCCTGACTTTCGTTTGCCATGGGCTCATATTCTCTTTGGGTCTTCTCTTTCTCTGGTCTAATGCCTCATCATTTATTAACAAgtaagattgtttttcatctctatcacaacttgttcaagttttggcaaagcataatcatgttccac---aggtagata---attacataaa----aggtctctaaactgtgccctttctttcag

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|60395326|gb|DN228195.1|DN228195

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|37377979|gb|CF625638.1|CF625638

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCAACGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|71319886|gb|DR796701.1|DR796701

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|213170374|gb|FM192501.1|FM192501

EST:     CTCTGGTCC-ATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: CTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|29946755|gb|CB816309.1|CB816309

EST:     GCCCTGGGTGTTCTCTTTCTCTGGGCCAATGCTTCATCGGTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGGGATCATTCCTGAAAGATT-AGTTGTCA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAA-GATTTAGTTGTCA

EST: gi|29576879|gb|CB616991.1|CB616991

EST:     CCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: CCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|211035915|gb|FK990122.1|FK990122

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|76915381|gb|DV165958.1|DV165958

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|22545660|gb|BU098019.1|BU098019

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|60345750|gb|DN212723.1|DN212723

EST:     CCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: CCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|60395367|gb|DN228236.1|DN228236

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|9952806|gb|BE639389.1|BE639389

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAG
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAG

EST: gi|60396494|gb|DN229363.1|DN229363

EST:     CAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: CAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|29544868|gb|CB605476.1|CB605476

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|71319888|gb|DR796702.1|DR796702

EST:     CCCTGAGTGTTCTCTTTCTCT-GTCCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: CCCTGGGTGTTCTCTTTCTCTGGT-CCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|6564128|gb|AW231750.1|AW231750

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|30031743|gb|CB833594.1|CB833594

EST:     GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

EST: gi|67017360|gb|CO446109.1|CO446109

EST:     GTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAA                         GGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA
genomic: GTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAA

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: 641

AATTGCTTGGCTACCATCTCCTTACTTTTGTTTGCCATGGTCTCATATTCGCCCTGGGTGTTCTCTTTCTCTGGTCCAATGCTTCATCGTTTATCCACAAgtaagatctc ... attaattcagGGCTCCACCAAAGATCCCAGAGGTGATCATTCCTGAAGATTTAGTTGTCAACATTGCGCTATCCACTCGTTACGAGATCAACAGAGCCTTTGCCAATCTC

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 379

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 551