ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACCCCTCCATATCCTCGCTCCACGGTCATGGCGAAGACGAAGCAGGGAAATAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttcccgcatccccgatctggttgtatctgttttccccgtgagaggtatctgatgctgctgcaaatgtctgtgccgggaag

Basic information

species	Zea mays
transcript	GRMZM5G871463_T02
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G871463_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 1

ACCCCTCCATATCCTCGCTCCACGGTCATGGCGAAGACGAAGCAGGGAAATAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaat----ttcccgcatccccgatctggttgtatctgttttccccgtgagaggtatctgatgctgctgcaaatgtctgtgccgggaag---------------------------------
  ||  ||| | |||||| ||   | |||||| ||||| |||||||| ||   |||||| || || |||||||||  ||||||||||||||||||    |||||      ||||    | | |||||    |  |||   || |||  | | |  |    | |       |||  |||| |  ||| |                                  
CACCTCCCAAAACCTCGCCCCCTCGCCATGGCCAAGACCAAGCAGGGCAAGCGGGACGTCGACTCCTACACCATCTCCGGCACCAACAAGGTCGTACGAGgtaacgtgcctccccgtcctctgatctcccgggttcttgatttccctcgggcgagagagaaagaaa----aaaaatctgaggggggcaagcaatgtgctgttgtttggtgggattggagcag

upper sequence: GRMZM5G871463_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os08g32620.3 (Oryza sativa), 5'ss of exon 1

----------ACCCCTCCATATCCTCGCTCCACGGTCATGGCGAAGACGAAGCAGGGAAATAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaat----ttcccgcatccccgatctggttgtatctgttttccccgtgagaggtatctgatgctgctgcaaatgtctgtgccgggaag---------------------------------
            ||  ||| | |||||| ||   | |||||| ||||| |||||||| ||   |||||| || || |||||||||  ||||||||||||||||||    |||||      ||||    | | |||||    |  |||   || |||  | | |  |    | |       |||  |||| |  ||| |                                  
CCCCCTCCTCCACCTCCCAAAACCTCGCCCCCTCGCCATGGCCAAGACCAAGCAGGGCAAGCGGGACGTCGACTCCTACACCATCTCCGGCACCAACAAGgtcgtacgaggtaacgtgcctccccgtcctctgatctcccgggttcttgatttccctcgggcgagagagaaagaaa----aaaaatctgaggggggcaagcaatgtgctgttgtttggtgggattggagcag

upper sequence: GRMZM5G871463_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA12G35680.2 (Glycine max), 5'ss of exon 1

-ACCCCTCCATATCCTCGCTCCACGGTCATGGCGAAGACGAAGCAGGGAAATAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttcccgcatccccgatctggttgtatctgttttccc-cgtgagaggtatctga-----tgctgctgcaaatgtctgtgccgggaag---------------------------------------------------------------------
 |      |  |    | || |||   |||||| || |||| ||  || |  || ||||||||||| ||||||||| | |||||||||||| ||||    ||||||  |  | | |||   | |  ||  | ||         ||| |  ||  ||  |     | ||  ||| || |   | |  |||||                                                                      
CAGAGTATCCGAGAGACCCTTCACAA-CATGGCAAAAACGAGGCCAGGCAGAAAAGACGTGGATTCCTACACCATCAGAGGCACCAACAAGATCGTAAGAGgtaatcgcaagaaacccttttatcttttcagctacccagttgcgtaaatggcctcaaaatcgtttcttttgcgaagggaaggggagggaatggtttgaaaccatgtggctgttgcgatgattagtgaaaggtgttttgttttttttgttgtgttctgcag

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|211489995|gb|FL137478.1|FL137478

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489991|gb|FL137474.1|FL137474

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211492880|gb|FL137490.1|FL137490

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211487121|gb|FL137471.1|FL137471

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489996|gb|FL137479.1|FL137479

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCKTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211490003|gb|FL137486.1|FL137486

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|26456797|gb|CA828380.1|CA828380

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211492882|gb|FL137492.1|FL137492

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211490002|gb|FL137485.1|FL137485

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489990|gb|FL137473.1|FL137473

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489989|gb|FL137472.1|FL137472

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489992|gb|FL137475.1|FL137475

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211492881|gb|FL137491.1|FL137491

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211492878|gb|FL137488.1|FL137488

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489999|gb|FL137482.1|FL137482

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211492879|gb|FL137489.1|FL137489

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211492877|gb|FL137487.1|FL137487

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211490001|gb|FL137484.1|FL137484

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489993|gb|FL137476.1|FL137476

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTA--                         T----GACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211489997|gb|FL137480.1|FL137480

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

EST: gi|211490000|gb|FL137483.1|FL137483

EST:     TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATG                         TGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG
genomic: TAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATG

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: 278

ACCCCTCCATATCCTCGCTCCACGGTCATGGCGAAGACGAAGCAGGGAAATAAGGACGTGGATTCGTACACCATCGGCGGCACCAACAAGGTCGTCTATGgtaatttccc ... tgccgggaagTGGGAGACTGCGTGCTGATGCGGGCGTCGGACTCGGACAACCAGCCGTATGTGGCGCGGGTGGAGAAGATGGAGGGCGACGGGCGTGGCAGCGTGCGGGT

Block sizes: 44 (upstream exon), 49 (downstream exon)
Score: 54

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