ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CACCGAGGAGGAGCTCGTCGACCTCTGCAAACCCTTCGGCCGGGTCGTAAACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccctgctctctgctcaactccccgtttctcggatcgattgcgatatcggtagcgatttgcgccctgtttctgctgtaaggatgactgagattac...

Basic information

species	Zea mays
transcript	GRMZM2G082174_T02
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G082174_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os08g33830.1 (Oryza sativa), 5'ss of exon 1

CACCGAGGAGGAGCTCGTCGACCTCTGCAAACCCTTCGGCCGGGTCGTAAACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaag------cccctgctctctgctcaactccccgtttctcggatc---gattgcgatatcggtagcgatttgcgccctgtttctgc-tgtaaggatgactgagattac
||||||||||||||||||||| |||||||| ||||||||| ||||||| ||||||||||||||||||||||| |||||||||||||| ||||||||||| |||||      ||||| | |||  | | | ||| |  | ||| |  |   |    ||  ||| | | |||||   |   |    |||| |||  |   | |         
CACCGAGGAGGAGCTCGTCGAGCTCTGCAAGCCCTTCGGCAGGGTCGTCAACACCATGTGCAACGTCGGCGCCAACCGCAACCAGGCCTTCGTCGAGTTCgtaaggacactcccctcccctccccccgattcctccctcctccgccccctgcccccgccatctg-atcgattacggatttacggctgcgtgtgcgatcgtc---------

upper sequence: GRMZM2G082174_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA09G37080.1 (Glycine max), 5'ss of exon 1

CACCGAGGAGGAGCTCGTCGACCTCTGCAAACCCTTCGGCCGGGTCGTAAACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccctgctctctgctcaactccccgtttctcggatcgattgcgatatcggtagcgatttgcgccctgtttctgctg---taaggatgactgagattac
| |||| ||||| |||   || |||||||||||||||||   | || | ||||||| |||||| |||||||| || ||||||||||| || ||||| || |||||  |   ||| ||       | ||  ||  |    || |||      |   ||| | |||  ||  ||| | || ||    | |    | | || |   
CTCCGAAGAGGAACTCAGAGAGCTCTGCAAACCCTTCGGTAAGATCATCAACACCAAGTGCAATGTCGGCGCCAATCGCAACCAGGCTTTTGTCGAATTCgtaagtactaactccctctctcctttcctattcttt---tcaattcttccctttttagggtttttagctgtgtatttgttgattcacgagaaattcagctcta

upper sequence: GRMZM2G082174_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA18G49580.1 (Glycine max), 5'ss of exon 1

CACCGAGGAGGAGCTCGTCGACCTCTGCAAACCCTTCGGCCGGGTCGTAAACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccctgctctctgctcaactccccgtttctcggatcgattgcgatatcggtagcgatttgcgccctgtttctgc-tgtaaggatgactgagattac----
  ||||||||||||||   || ||||||| |||||||||   | |||| ||||||| |||||| |||||||| || ||||||||||| || ||||| || |||||   || | || | ||   ||   | || ||    |   ||      |   ||||  | |      ||||| | | ||  |   | |      ||||    
-TCCGAGGAGGAGCTCAGAGAGCTCTGCAGACCCTTCGGTAAGATCGTCAACACCAAGTGCAATGTCGGCGCCAATCGCAACCAGGCTTTTGTCGAATTCGtaagtaact-ccctttcctattcttttcattccttccttattttttagggtttttagccgtgta---tttgtttattcatgagaaatttagctctgttacacat

upper sequence: GRMZM2G082174_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv14s0108g01030.t01 (Vitis vinifera), 5'ss of exon 1

CACCGAGGAGGAGCTCGTCGACCTCTGCAAACCCTTCGGCCGGGTCGTAAACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccctgctctctgctcaactccccgtttctcggatcgattgcgatatcggtagcgatttgcgccctgtttctgctgtaagga-tgactgagattac-
||||||||||||||| || || ||||| ||||||||||||  | |||| ||||||| |||||| |||||||| || ||||||||||| ||||| || || || || |||  | |  |  |    |  |  | |  ||  || ||     | |    ||  || |   |  |  || |  || ||||  |  ||   |  |  
CACCGAGGAGGAGCTTGTGGAGCTCTGTAAACCCTTCGGCAAGATCGTCAACACCAAGTGCAATGTCGGCGCCAATCGCAACCAGGCCTTCGTGGAATTCgtgagtccccccccctttttt--ttttctttcttccgattccatccgtttgtttcaagatatatcttcatttattttattgaaaggggtttcttctagaaag

upper sequence: GRMZM2G082174_T02 (Zea mays), 5'ss of exon 1
lower sequence: PP1S81_184V6.1 (Physcomitrella patens), 5'ss of exon 1

CACCGAGGAGGAGCTCGTCGACCTCTGCAAACCCTTCGGCCGGGTCGTAAACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccctgctctctgctcaactccccgtttctcggatcg-attgcgatatcggtagcgatttgcgccctgtttctgctgtaaggatgactgagattac-
|| ||||||||||||| |||| || ||||| |||||||||  ||| || ||||||| |  ||| ||||| || |||| ||||||||| ||||| ||||| || ||        || | | || | | |      |||  ||   ||| | |  | ||   | || ||       |     | | | | ||  ||   |  | 
CAGCGAGGAGGAGCTCATCGAGCTGTGCAAGCCCTTCGGCAAGGTGGTCAACACCAAGGTCAATGTCGGGGCCAACCACAACCAGGCGTTCGTGGAGTTCgtgagtattcttcctat-cccagcgctctcgggttcgtttcttgttgtggtgcctgttagggttcgcagtgatctataattatgatg-tggttggattcgct

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|211122890|gb|FL005563.1|FL005563

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         GCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|78106856|gb|DV525274.1|DV525274

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         GCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|211122887|gb|FL005560.1|FL005560

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         GCAGATCAAAACCAGGCAATTTCAATGGNGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|211122889|gb|FL005562.1|FL005562

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         GCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|9824979|gb|BE575076.1|BE575076

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         GCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|211122893|gb|FL005566.1|FL005566

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         --A--TCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|71312181|gb|DR792612.1|DR792612

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         GCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|211177082|gb|FL103332.1|FL103332

EST:     ACACCATGTGYAACGTCGKHDCTAACCGCAACCAGGCATTCGTCGAGTTT                         GCAGATCANAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

EST: gi|211122886|gb|FL005559.1|FL005559

EST:     ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTT                         --A--TCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA
genomic: ACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCA

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: 89

CACCGAGGAGGAGCTCGTCGACCTCTGCAAACCCTTCGGCCGGGTCGTAAACACCATGTGCAACGTCGGCGCTAACCGCAACCAGGCATTCGTCGAGTTTgtaagcccct ... tcattttcagGCAGATCAAAACCAGGCAATTTCAATGGTGTCCTATTATGCTTCATCTTCAGAACCTGCTCAAGTTCGTGGTAAAACTGTATATATCCAATATTCAAACA

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 54

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 38