ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AACCGTCAAATTCGTTGCAATTGGGCAACGAAAGGTGCTAATGCTGGTGAAGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacatgtgctttggcttcttgagcttctctttttctgagtgtttcaaaaagtgctagccgctagacgtgcctagcaacctaggtggtgctcaggt...

Basic information

species	Zea mays
transcript	GRMZM5G835213_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G835213_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 9

AACCGTCAAATTCGTTGCAATTGGGCAACGAAAGGTGCTAATGCTGGTGAAGAGAAACAGATTCTGGACACTAAGGTT------GACCTGTCAAATGGTTCATCAGgtgaatacatgtgctttggcttcttga--gcttctctttttctgagtgtttcaaaaagtgctagccgctagacgtgcctagcaacctaggtggtgctcaggt-----------------------------------------------------
      ||| ||||||||||||||||||| || |||||||||||||||||||||||||| | |   ||| | |||| |      ||  || |||||||||||||||||||||| |  ||| ||   | || |    ||| | ||  | | |||   |  |  | ||  |   |    | ||  | | ||||  ||   | |||| | |                                                     
------CAAGTTCGTTGCAATTGGGCAACAAAGGGTGCTAATGCTGGTGAAGAGAAACAAAATACAGACTCCAAGGGTATGATAGAGTTGACAAATGGTTCATCAGgtgaatatacatgccttttgtcctggcccacttgttttggtttaagtcaatacatgattgtaatatgt--aatgtaacaatcaactgagcaagagctctgttaaatggctagaaagtactgaactgtaaagtattccatgttcttttttatgcag

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|24934275|gb|CA452493.1|CA452493

EST:     AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|71436375|gb|DR817425.1|DR817425

EST:     AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|71324258|gb|DR798829.1|DR798829

EST:     AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|31361403|gb|CD445760.1|CD445760

EST:     AGAGAAACAAATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|22546594|gb|BU098905.1|BU098905

EST:     AGAGAAACAAATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|22545671|gb|BU098030.1|BU098030

EST:     AGAGAAACAAATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|33091883|gb|CF051877.1|CF051877

EST:     AGAGAAACAGGTTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|194717059|gb|FK934212.1|FK934212

EST:     AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|5268356|gb|AI770320.1|AI770320

EST:     AGAGAAACAAATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCTGA
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGA

EST: gi|26456698|gb|CA828281.1|CA828281

EST:     AGAGAAACAAATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCCTGAAAATAACCCTCAG
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGT-CCTGAAAATAACCCTCAG

EST: gi|32850339|gb|CD990020.1|CD990020

EST:     AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

EST: gi|32866442|gb|CF006124.1|CF006124

EST:     AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAG                         AATCTGGAAAAGAGAATCCAAATGATGATGGTCCTGAAAATAACCCTCAGT
genomic: AGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGT

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), 48 (downstream exon)
Score: 656

AACCGTCAAATTCGTTGCAATTGGGCAACGAAAGGTGCTAATGCTGGTGAAGAGAAACAGATTCTGGACACTAAGGTTGACCTGTCAAATGGTTCATCAGgtgaatacat ... tgttctgcagAATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGTTTACTACTGTTTATGTTGGCAATCTTCCTCACGAG

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 375

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 468