ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtagccatatacgtatggtatggatactatatcactatgagcagttgacgtgcacaactcatcaaggcccccagatggggtgagaccgccagcagcagtgtcgttcgttcgtccgtgcgttctgccgaatgcttttggttgtttgaagttcgtaattgtttgctcggctttcag

Basic information

species	Zea mays
transcript	GRMZM2G095141_T03
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G095141_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os12g04020.1 (Oryza sativa), 5'ss of exon 2

---------TCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtg-tagccatatacgtatggtatggatactatatcactatgagcagttgac--gtgcacaactcatcaaggcccccagatggggtgagaccgccagcagcagtgtcgttcgttcgtccgtgcgttctgccgaatgcttttggttgtttgaagttcgtaattgtttgctcggctttcag
         | || |||||||| |||||||||||||||||||| |   |||||   || |   | ||  | ||  ||         |  || |||  || |||   |||||||||  |||   | |||   ||  |    |||  |   ||  |      ||  |  ||       |  ||         |  | |     ||  |                                                                                      
CACTTGGTCTTGGGGACCTGCCAAAGTTGAGTATTAACAGACTTGAAAGGTTC---TCTCCAAGTGCCTGCAGAGCA------AGTGTTGATGACAGCAACACCAACAAgtaagttctagtgttctactgttgcaaactttaccgtgctacatttcttcctttcctagttgttgctttgtcggtatttttactttgacgcggaatgttt-----------------------------------------------------------------------------------

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|211335900|gb|FL358434.1|FL358434

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|211386581|gb|FL357085.1|FL357085

EST:     CTGGGCGCTCGGAGGCCACCGGCAG-CGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCCTCAGATGGCATTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|71301051|gb|DR786555.1|DR786555

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|211512679|gb|FL346133.1|FL346133

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCCTCAGATGGCATTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|78075611|gb|DV504045.1|DV504045

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|149081591|gb|EE170732.2|EE170732

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|148941574|gb|EC886510.2|EC886510

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|149100624|gb|EE186712.2|EE186712

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|78078033|gb|DV506448.1|DV506448

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|71447021|gb|DR828071.1|DR828071

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|211347508|gb|FL349165.1|FL349165

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCC
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCC

EST: gi|148951347|gb|EC897061.2|EC897061

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|211310888|gb|FL144806.1|FL144806

EST:     CTGGGCGCTCGGAGGCCACCGGCAG-CGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACA

EST: gi|148959199|gb|EE010648.2|EE010648

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|91872713|gb|EB402670.1|EB402670

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|148951196|gb|EC896884.2|EC896884

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

EST: gi|149076596|gb|EE165231.2|EE165231

EST:     CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAA                         ATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA
genomic: CTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCA

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: 45 (upstream exon), 49 (downstream exon)
Score: 30

TCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCCACCGGCCGACGACGACGACCACAGCACTGGCAAgtaagtgtag ... cggctttcagATACAGCAGCAGCTCCTGCAACAATGGCAGCCATCAGATGGCCTTCCATCATGGCAGCAACTCCTCCTATCCCTGGCACCCGCAGTGCCGCCAGGCCGCC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 70

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 68