ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATACCCAAAAAGACTGCTGAGTTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaaagtcttgagcttctctatacttttgttcattgagaagagaacattatgtgggttttaagcttatctgtcgataaatgtgctgtgcag

Basic information

species	Zea mays
transcript	GRMZM2G027115_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G027115_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os10g32730.1 (Oryza sativa), 5'ss of exon 7

ATACCCAAAAAGACTGCTGAGTTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaaagtcttgagcttctctatacttttgttcattgagaagagaacattatgtgggttttaagcttatctgtcgataaatgtgctgtgcag
 | ||||||| ||||||||| |||||||||||||||||||||||||||||||||||||| || | ||||||||| ||||| ||||||||||||| |||||||||| || || ||||| |  |      |||| ||||          |||| ||| || |  | || | |||||||   || | || |  | |||||
GTCCCCAAAAGGACTGCTGAATTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGACGTAAAGCCTGAAAAATGGGGATTGCCACCATTTAGTGATTgtatgctctaactcttgggact------acttctgtt----------agaaaattctgggcatctttaacttatctactgacatatttcttatgcag

upper sequence: GRMZM2G027115_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os10g14814.1 (Oryza sativa), 5'ss of exon 6

ATACCCAAAAAGACTGCTGAGTTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaaagtcttgagcttctctatacttttgttcattgagaagagaacattatgtgggttttaagcttatctgtcgataaatgtgctgtgcag
 | ||||||| ||||||||| |||||||||||||||||||||||||||||||||||||| || ||||||||||| ||||| ||||  ||||||| ||||||||||||| || ||||| |  |      |||| ||||          |||| ||||   |  | || | ||||||| | || | || |  | |||||
GTCCCCAAAAGGACTGCTGAATTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGACGTAAGGCCTGAAAAATGGGGATTGCGGCCATTTAGTGATTgtatgttctaactcttgggact------acttctgtt----------agaaaattacaggcatctttatcttatctattgacatattttatatgcag

upper sequence: GRMZM2G027115_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA07G30970.1 (Glycine max), 5'ss of exon 6

ATACCCAAAAAGACTGC-TGAGTTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaaagt--cttgagcttctctatacttttgttcattgagaagagaac-attatgtgggttttaagctt-atctgtcgataaatgtgctgtgcag
    ||||||     || |   |  | | | || |||||||||||||||||||| |||||| || | |  |||||||||||  |||| |||||| | |||||||    | || |   || || |  || ||  || | |   ||| |         ||| | ||   ||||   || | || |   |  |  |  | |||||
-CTTCCAAAACAGTCGCATCTCTATACTGCAGCAGATGAGGTGATCAATTCCCTACTTGATTTGCGACTCGAAAAGTGGGGTCTGCCTCCATTTGAAGATTgtaaaccccaaatactttaagatagtccat-tttgtatgtgttgtgtttctttttattgtatgtcatttatatttgaactattattttaaattat-tgcag

upper sequence: GRMZM2G027115_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA08G06330.1 (Glycine max), 5'ss of exon 1

ATACCCAAAAAGACTGC-TGAGTTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaaagt-cttgagcttctctatacttttgttcattgagaagagaacattatgtgggttttaagctt-atctgtcgataaatgtgctgtgcag
    ||||||    ||| |   |  | | | || |||||||||||||||||||| |||||| || | | ||||||||||||  |||| |||||| | ||||||||   | || | ||| |   |     |  || | |   ||| |        ||| | ||   ||||   || | ||     |  |  |  | |||||
-CTTCCAAAACAGTTGCATCTCTATACTGCAGCAGATGAGGTGATCAATTCCCTACTTGATTTGCGACTTGAAAAGTGGGGTCTGCCTCCATTTGAAGATTgtataccccaaatactttaagatagtcctttttgtatgtgttgtgtttcttttattgtatgtcatttatatttgaactagtattttaaat-ttttgcag

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|19822013|gb|BQ048037.1|BQ048037

EST:     CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATT                         GGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA
genomic: CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaa ... tgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA

EST: gi|76018985|gb|DT946155.1|DT946155

EST:     CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATT                         GGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA
genomic: CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaa ... tgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA

EST: gi|18169104|gb|BM338944.1|BM338944

EST:     CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATT                         GGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA
genomic: CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaa ... tgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA

EST: gi|15499363|gb|BI595876.1|BI595876

EST:     TTGCCACCATTTAATGA-T                         GGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA
genomic: TTGCCACCATTTAATGATTgtatgttcaa ... tgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA

EST: gi|18169085|gb|BM338925.1|BM338925

EST:     CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATT                         GGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA
genomic: CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaa ... tgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA

EST: gi|71447208|gb|DR828258.1|DR828258

EST:     CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATT                         GGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA
genomic: CCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaa ... tgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGA

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: 46 (upstream exon), 38 (downstream exon)
Score: 46

ATACCCAAAAAGACTGCTGAGTTCAGTTCTGCTGATGAGGTGATCAATTCCCTCCTTGATGTGAGGCCTGAAAAGTGGGGGTTGCCACCATTTAATGATTgtatgttcaa ... tgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGATCAAAGGATTTGGCCGTGGTTCTAAAGTACTAGGAATACCAACAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 69

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 47