ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACTGACATGGATAGTACCAACTTGTATGCATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctagttttaatttatctacattatattttgaacaatatatttctgcagtttctctttgtatttttgctacaggacatgttctttcttagaatgc...

Basic information

species	Zea mays
transcript	GRMZM2G083344_T02
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G083344_T03 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os05g15160.1 (Oryza sativa), 5'ss of exon 8

ACTGACATGGATAGTACCAACTTGTATGCATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctagtttta-----atttatctacattatattttgaacaatatatttctgcagtttctctttgtatttttgctacaggacatgttctttcttagaatgc
|||||||||||||| |||||| ||||||| ||||| ||||||||||||||| ||||||||||||| ||||||||||||||||| ||| |||||     ||  || |   ||| || || |||| |  |  | |   ||  |   | |   | | | |||   | | |   | ||  |      
ACTGACATGGATAGCACCAACCTGTATGCGTACATCTCAATAATTGCTCTCCTTGTCTGCATCCCTCCTGCAATTATTgtaagtctaattttatctttatgcatgtttgttacatatttaacacttcagctgt-tggtagcatataggtctatagatacctaaaaaggcatatcgcaac----

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|8665718|gb|BE186534.1|BE186534

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|71760100|gb|DR958037.1|DR958037

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|32928246|gb|CF033058.1|CF033058

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|32165070|gb|CD670388.1|CD670388

EST:     TTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: TTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|71328475|gb|DR800887.1|DR800887

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|76930049|gb|DV172255.1|DV172255

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|71768355|gb|DR966292.1|DR966292

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|32935156|gb|CF039968.1|CF039968

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|32862760|gb|CF002442.1|CF002442

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

EST: gi|166466843|gb|EG171627.1|EG171627

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGC
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGC

EST: gi|32837170|gb|CD976848.1|CD976848

EST:     CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATT                         ATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA
genomic: CATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAA

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), 48 (downstream exon)
Score: 182

ACTGACATGGATAGTACCAACTTGTATGCATACATATCAATAATTGCTCTCTTTGTCTGCATCCCCCCTGCAATTATTgtaagcctag ... caactttcagATTGAAGGACCTCAATTAGTGCAGCATGGTTTTAAAGATGCAATTGCCAAAGTTGGATTAACAAAGTTGATTTCTAATTTTTTTGTGGTGGGCTTATTCT

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 57

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 41