ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAACACAGCAATGGCCACCAATGGCTTGACAGCATTGCTCATTGCAAGGCTTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcctagccttagctgttagtcctgaagttttaggacgctcactgtgattgaaatgattctagtagtttgtagagtctcaaatttgttgtttacatattcttccag

Basic information

species	Zea mays
transcript	GRMZM2G084586_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G084586_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os04g56530.1 (Oryza sativa), 5'ss of exon 23

AAACACAGCAATGGCCACCAATGGCTTGACAGCATTGCTCATTGCAAGGCTTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgc-tgcctagccttagctgt-tagtcctgaagttttagga-----------cgctcactgtgattgaaatgattctag-----tagtttgtagagtctcaaatttgttgtttacatattcttccag------------------------------------------------
||| ||||||||||| |||||||| || ||  || |||| |||||||||||| |||| ||||| |||||||||||  |||| ||||| ||| | |||||||||||| | ||| || |||  | | | ||      ||||||  |             ||  | |||||  |||| | |||||      | |||    | | ||||   | |  || |  ||   ||  |                                                 
AAATACAGCAATGGCTACCAATGGTTTAACGACACTGCTTATTGCAAGGCTTGACCACCGAGAAGCTATTGCCCGTTTGACACTGCTAAAATTAATAAAGgtttgcattcctcgctttaaatttctggttacatggttttaatatatcaaccttctactagcagtgatc-aaataagtctagaatttcattttactcaatatcaacgatatgtttaatgtacctttgtaaagtttgaactccatgatttaacgttcgattgtttggaattgctttcag

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|60351006|gb|DN217979.1|DN217979

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|6653889|gb|AW267294.1|AW267294

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|6466786|gb|AW191446.1|AW191446

EST:     TTAACCATCGAG-CGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|18173480|gb|BM348868.1|BM348868

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|33093532|gb|CF053526.1|CF053526

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|37382426|gb|CF628158.1|CF628158

EST:     CTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: CTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|83278556|gb|DV942564.1|DV942564

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|40335450|gb|CK369520.1|CK369520

EST:     CTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: CTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|31362452|gb|CD446809.1|CD446809

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|60356264|gb|DN223237.1|DN223237

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|60337694|gb|DN204667.1|DN204667

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|78025482|gb|DV493869.1|DV493869

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

EST: gi|12972609|gb|BG268067.1|BG268067

EST:     TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAGCTCATAAAG                         GTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC
genomic: TTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGAC

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: 47 (upstream exon), 49 (downstream exon)
Score: 94

AAACACAGCAATGGCCACCAATGGCTTGACAGCATTGCTCATTGCAAGGCTTAACCATCGAGACGCTATTGCCCGCCTGACTCTGCTGAAACTCATAAAGgtttgctgcc ... attcttccagGTTGTCTATGAGCATCATCCTCGACCAAAACAGGTCATAGTAGAGAATGACCTCCCTCAGAAGCTACAAAACCTGATTGAAGAACGCAGGGGTGGACAAC

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 70

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 54