ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGCACCTTCACTGTATCAAATTTGGGAGGTCCCTTCGGAATTAAACAATTCTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtcctagaacctttctacttgtatgctagcatgctgctctactgctcatgtgtggaagtacagtggtagtttgcgtttacagcacttctctgt...

Basic information

species	Zea mays
transcript	GRMZM2G015132_T01
intron #	16
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G015132_T01 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os07g22720.1 (Oryza sativa), 5'ss of exon 17

GGCACCTTCACTGTATCAAATTTGGGAGGTCCCTTCGGAATTAAACAATTCTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtcctagaacctttctacttg---tatgctagcatgctgctctactgctca-tgtgtggaagta-cagtggtagtttgcgttta-cagcacttctctgt
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GGCACATTCACCATATCAAACTTGGGAGGTCCTTTTGGAATTAAGCAATTTTGTGCCATCATAAATCCTCCTCAGTCGGCAATCTTGGCCATTGGTTCTGgtaataagtcatgttgcacttttactttgtttccactaattcgttgccacttagcttactctgtaaaaataattgtagcattatatatttatctgcatta------

upper sequence: GRMZM2G015132_T01 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os02g01500.1 (Oryza sativa), 5'ss of exon 17

GGCACCTTCACTGTATCAAATTTGGGAGGTCCCTTCGGAATTAAACAATTCTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtcctagaacctttctacttgtatgctagcatgctgctctactgctcatgtgtggaagtacagtggtagtttgcgtttacagca-cttctctgt-
||||| |||||  |||||||  | |||||||| |||||||| ||||||||||| ||||||||||||||||| ||||||||||| |||||||||||| |||||||    | |||  |  ||| |      ||    | |   | || || |       | |     |  |||     ||       | |  | |||   ||  
GGCACATTCACCATATCAAACCTAGGAGGTCCTTTCGGAATCAAACAATTCTGTGCCATCATAAATCCTCCTCAGTCAGCAATCTTGGCCATTGGTACTGgtaagtcatgctaatatgtttgtgtaataataacggtagcatcctgtattatctgcatttctt--tctagtatcttttgagaagcatattatctttgttgcc

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|29576885|gb|CB616997.1|CB616997

EST:     CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTG                         CTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT
genomic: CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtc ... ttttgtgcagCTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT

EST: gi|71761137|gb|DR959074.1|DR959074

EST:     TTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTTTG                         CTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT
genomic: CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtc ... ttttgtgcagCTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT

EST: gi|76932163|gb|DV172956.1|DV172956

EST:     CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTG                         CTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT
genomic: CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtc ... ttttgtgcagCTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT

EST: gi|71333154|gb|DR803611.1|DR803611

EST:     TTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTG                         CTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT
genomic: CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtc ... ttttgtgcagCTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT

EST: gi|211011840|gb|FL066266.1|FL066266

EST:     CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTG                         CTGAGAATAGGGTGATACCTGTTTCCGCTGATGGCCAGTTTGAATTTGGTT
genomic: CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtc ... ttttgtgcagCTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT

EST: gi|78091151|gb|DV519525.1|DV519525

EST:     CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTG                         CTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT
genomic: CTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtc ... ttttgtgcagCTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTT

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: 454

GGCACCTTCACTGTATCAAATTTGGGAGGTCCCTTCGGAATTAAACAATTCTGCGCCATCATAAATCCTCCCCAGTCAGCAATTTTGGCCATTGGTTCTGgtaatgagtc ... ttttgtgcagCTGAGAAGAGGGTGATACCTGGTTCCGCTGATGGCCAGTTTGAATTTGGTTCATTCATGTCAGCTACACTGAGCTGTGACCACAGGGTTATAGATG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 768

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 467