ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gttagtgtctgtatctcaagactccaactttttgctgatatcttcatccaaaggctgagttatcgtctatttcataaatggcggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCACAATGTATGAGTTCGACGCTTCAGTCAATGGTGCACTTGTTATCAAGG

Basic information

species	Zea mays
transcript	GRMZM2G170595_T01
intron #	3
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G170595_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g47940.1 (Oryza sativa), 3'ss of exon 3

---------------------------gttagtgtctgtatctcaagactccaacttt-----ttgctgatatcttcatccaaaggctgagttatcgtctatttcataaatggcggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCACAATGTATGAGTTCGACGCTTCAGTCAATGGTGCACTTGTTATCAAGG
                            ||  ||   |    |   |  ||| | ||      | ||  |  | ||  |  ||      ||| || | ||| ||  | ||||| | || ||||||||||| || |||||||| |||||||||||||||||||||||||| || || ||||||||||| || || |||||||||||||||||||| |||||||
gttagcatgtagcttgttttatacctgctttttgcacgagatttttgtatccgagttgagtaatagcctagttttttttttaataaaaaagtaatagcctagtt--tgaatggtgaaaatgcagATGTGTACTCGAACCAGGTGACAAAATTGTTGATTGCCCTCCAACTTTTACGATGTATGAGTTTGATGCGTCAGTCAATGGTGCACTTGTGATCAAGG

upper sequence: GRMZM2G170595_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G27220.1 (Glycine max), 3'ss of exon 4

---------gttagtgtctgtatctca----agactccaactttttgctgatatcttcatc----caaaggctgagttatcgtctatttcataaatggcgga-----attgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCACAATGTATGAGTTCGACGCTTCAGTCAATGGTGCACTTGTTATCAAGG
           ||   | ||||| | |    || ||| || | |||      ||  | ||       |  |||  |  |    | ||   | |     |  |     | | ||| |||||||| || || || ||||| ||||| || |||||||| || |||||||||||||| || || ||| | || ||||| |||||||||||||| |
gttagaaccaataccttatgtattttagataagcctcaaattctttctcttcatgctaattgtcatcatagctacgacaatcaccatcatacatgcttctcatatatactccagTTGTGTGCTGGATCCTGGAGACAAGATTGTGGACTGCCCTCCGACCTTCACAATGTATGAATTTGATGCTGCGGTTAATGGAGCACTTGTTATCAAAG

upper sequence: GRMZM2G170595_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0072g00940.t01 (Vitis vinifera), 3'ss of exon 4

-------------------gttagtgtctgtatctcaagactcca---actttttgctgatatcttcatccaaaggctg--agtt----atcgtctatttcataaatggcggaattg----------cagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCACAATGTATGAGTTCGACGCTTCAGTCAATGGTGCACTTGTTATCAAGG
                   ||   |   ||    | || | |  |   |  ||| | |  ||  |||     ||  ||   | ||    || || |||||  |  ||    | ||||          ||||||||| || || || || ||||| ||||| ||||| || ||||| |||||||||||||| || || ||| | || ||||| ||||||||| |||| |
gttagaaatggaagattttgtgtttacttgagctttaaaattatattgatctttggtttgtagtttctatttaattctaccaattcccaattgtttattttgtttattattgcattgacctctattacagATGTGTACTGGATCCTGGTGACAAGATTGTGGATTGTCCGCCAACTTTCACAATGTATGAATTTGATGCTGCTGTTAATGGGGCACTTGTTCTCAAAG

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|71437833|gb|DR818883.1|DR818883

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|78078617|gb|DV507029.1|DV507029

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|148974572|gb|EE025361.2|EE025361

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|87153226|gb|DY398015.1|DY398015

EST:     TACATTCTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTCGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|32930096|gb|CF034908.1|CF034908

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|91048897|gb|EB159315.1|EB159315

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCCTCCAACATTCA
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCC-TCCAACATTCA

EST: gi|148963664|gb|EE014723.2|EE014723

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|148932895|gb|EE285676.2|EE285676

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|78079657|gb|DV508069.1|DV508069

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|19822775|gb|BQ048799.1|BQ048799

EST:     TACATTCTTGCTGGATGTGGCGCAGATGAACTAATTGATTCAATTATGAG                         ATGTGTGCTCGAACCAGGCGACAAAATT
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATT

EST: gi|211221376|gb|FL266596.1|FL266596

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATT-AATTATGAG                         ATGTGTGCTTGAACTAGGCGACAAAATTG
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTG

EST: gi|148932277|gb|EC875831.2|EC875831

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|76289509|gb|DV029077.1|DV029077

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|71332195|gb|DR803018.1|DR803018

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|149109171|gb|EE190055.2|EE190055

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|211221375|gb|FL266595.1|FL266595

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTG
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTG

EST: gi|71328633|gb|DR800987.1|DR800987

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|211221367|gb|FL266587.1|FL266587

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATT-AATTATGAG                         ATGTGTGCTCGAACCAGG
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGG

EST: gi|149111871|gb|EE191026.2|EE191026

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

EST: gi|6020568|gb|AW065601.1|AW065601

EST:     TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAG                         ATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC
genomic: TACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCAC

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: 141

GCCGCCAATTGCGTGCTGCCCTTGCTGAAGATTCTGGACTTGAATCTGATTACATACTTGCTGGATGTGGCGCAGATGAACTAATTGATTTAATTATGAGgttagtgtct ... ggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCACAATGTATGAGTTCGACGCTTCAGTCAATGGTGCACTTGTTATCAAGG

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 142

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 158

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 112

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

atatcttcatccaaaggctgagttatcgtctatttcataaatggcggaattgcagATGTGTGCTTGAACCAGGCGACAAAATTGTTGATTGCCCTCCAACATTCACAATGTATGAGTTCGACGCTTCAGTCAATGGTGCACTTGTTATCAAGG