ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATACGAGTTGAAACAGATCCACAAGACAGGACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtctagctccatttatttaaattatggttcattgctaagtgtaatttgtaatgcagaagttgattgaaagattttggtaaacag

Basic information

species	Zea mays
transcript	GRMZM2G137236_T01
intron #	26
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G137236_T01 (Zea mays), 5'ss of exon 26
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 5'ss of exon 26

ATACGAGTTGAAACAGATCCACAAGACAGGACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtctagctccatttatttaaattatggttcattgctaagtgtaatttgtaatgcagaagttgattgaaagattttggtaaacag--------
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GTCAGAATCGAAACTGATCCACAAGATAGAACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGAGTA-AATATCgttccatt-atatttattgtatcttgtggttaatggctattaggaaaaccaaagttgatctcgggattttaccaaacaggttgaaag

upper sequence: GRMZM2G137236_T01 (Zea mays), 5'ss of exon 26
lower sequence: LOC_Os03g02150.2 (Oryza sativa), 5'ss of exon 24

ATACGAGTTGAAACAGATCCACAAGACAGGACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtctagctccatttatttaaattatggttcattgctaagtgtaatttgtaatgcagaagttgattgaaagattttggtaaacag
 |  || | ||||| ||||||||||| || || ||||| ||||| ||||| || || || || || ||||||||||||||||| | | | | |||||| || |  ||| |   |  | | |||  |  ||| | ||  |  ||||||||     ||||||   ||||||
GTCAGAATCGAAACTGATCCACAAGATAGAACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGAgta-aatatcgttccatt-atatttattgtatcttgtggttaatggctattaggaaaaccaaagttgatctcgggattttaccaaacag

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|211479461|gb|FL404982.1|FL404982

EST:     ACCCNTCTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|211430870|gb|FL250418.1|FL250418

EST:     CCCAACTGCGGCTAACAGTTGCCTCGGAGCGAC-AATATTTGACATTCGA                         A
genomic: CCCAACTGCGGCTAACAGTTGCCTCGG-GCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacag-

EST: gi|211430870|gb|FL250418.1|FL250418

EST:     CCCAACTGCGGCTAACAGTTGCCTCGGAGCGAC-AATATTTGACATTCGA                         A
genomic: CCCAACTGCGGCTAACAGTTGCCTCGG-GCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacag-

EST: gi|32799873|gb|CD952109.1|CD952109

EST:     ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAGGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|37395386|gb|CF634973.1|CF634973

EST:     ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAGGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|211396401|gb|FL438169.1|FL438169

EST:     CTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: CTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|113704027|gb|EE681531.1|EE681531

EST:     ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAGGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|67018440|gb|CO447189.1|CO447189

EST:     ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAGGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|60341139|gb|DN208112.1|DN208112

EST:     ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|211430871|gb|FL250419.1|FL250419

EST:     ACCCAACTGCGGCTAACAGTTGCCTCGGGCGAACAATATTTGACATTCAA                         GTTGAAAGA-TTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAAGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

EST: gi|213169610|gb|FM186192.1|FM186192

EST:     ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGA                         GTTGAAAGAGTTCATCAAGGAACATCTGGTTGATATCCCAAGGACTCAGGT
genomic: ACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGT

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: 49 (upstream exon), 49 (downstream exon)
Score: 90

ATACGAGTTGAAACAGATCCACAAGACAGGACCCAACTGCGGCTAACAGTTGCCTCGGGCGACCAATATTTGACATTCGAgtatagtcta ... tggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGTCGCCCCACCTCGCGCAGCAGTCCAGCCACAGTTGCCTACTACAGCACCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 102

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 96