ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttggttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaattcgaactactaacctt...

Basic information

species	Zea mays
transcript	GRMZM2G307252_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 5'ss of exon 2

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttggttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaattcgaactactaacctt
||||||||||||| |||||||| ||||| || |||||||| || |||||||||||||||||||| ||||| || ||||||||||||||||| |||||||||||||||| ||||    || | |  | || |    | | ||  ||| ||||    | |||                                        
TTTTCTTTGCTGGCATCATTGTTATCTGCCTTGATGAACTTCTCCAGAAAGGCTATGGTTTGGGTTCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttaaatttctttatcttacattcttactgatgtgacattttgttacaatttag--------------------------------------

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 5'ss of exon 2

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttggttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaattcgaactactaacctt
||||||||||||| ||||||||||||||||| |||||||| || |||||||||||||||||||| ||||| || ||  |||| |||||||| ||||||||||||||||  |||   | | |||   |  ||      | ||  ||| |||| |  | |||                                        
TTTTCTTTGCTGGCATCATTGTCATCTGTCTTGATGAACTTCTCCAGAAAGGCTATGGTTTGGGTTCTGGCATTTCATTGTTTATTGCTACCAATATCTGgtaagcatcctaaa--cttctttctcttgct------gatgtgacattttgtcgcaatttag--------------------------------------

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 3

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttggttcactacc-----tcagttgccacactttgcctaacttttctgcctaaggttagttattcaattcgaactactaacctt---------------------------------
| |  ||||| ||||| ||||| || ||||||||||| || || || ||||| |||||| |||| ||||| || || || |||||||| || ||||||||||||   | |      ||    ||    | | ||     | | ||   |   | |   |   | ||||  | |  | ||   |    |||  ||| | | | ||                                  
TATGTTTTGCGGGTATAATTGTGATATGTCTAGATGAGCTTCTTCAAAAAGGATATGGTCTGGGGTCTGGAATATCCCTATTCATTGCAACCAATATCTGgtaaatttctacttttccctgatgagatatttccagcttttaattataatgttcttgttg--tcttctagcaactgctaaccaggatattt-aaccatttatctaatacttaaatggaattcccttttcgtttttcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA12G35990.1 (Glycine max), 5'ss of exon 3

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttggttcactacctcagttgccacactttgcctaac-ttttctgcctaaggttagttattcaattcgaactactaacctt---------------------------------
| |  ||||| ||||| ||||| || ||||||||||| || || || ||||| |||||| |||| ||||| || || || ||||| || || ||||||||||||   | |       |  | |  ||| || | |    | | | | | | | |    | ||||  | |  | ||   |     ||  ||| | | | |                                   
TCTGTTTTGCGGGTATAATTGTGATATGTCTAGATGAGCTTCTTCAAAAAGGATATGGTCTGGGGTCTGGAATTTCCCTTTTCATAGCAACTAATATCTGgtaaatttctaccctaacgatatatttc-ctgcttgtaat-ctataatgttcttgttgtcttctagcaactgctaaccagaatgttt-aaccatttatcaaatacttaaaaggaattcccttgtcatttttcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G32680.1 (Glycine max), 5'ss of exon 3

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttggttcactacctcagttgccacactttgcctaacttttctgcctaaggttagt----tattcaattcgaactactaacctt--------------------------
| |  ||||| ||||| ||||| || ||| | ||||| ||||| || ||||||||||| ||||||||||| || |||||||||||||| || ||||| |||||||  |  |     | |  ||  ||   ||  | | || |  ||    || |   | |  |  | |   ||||     | |    |      ||  || |||                          
TATGTTTTGCGGGTATTATTGTGATATGTTTGGATGAGCTCCTTCAAAAAGGCTATGGCTTGGGATCTGGAATTTCTCTGTTCATTGCCACTAATATATGgtaagttttattgtcccttaatttattgtataattta-ttccagcatcgagcttgtgtctcatagcaactattagcaaagtgtatggtcttttataaaaaacttatatgaattctctgattacattgcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA12G17950.1 (Glycine max), 5'ss of exon 3

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaag----catattaagggcctgtttggttcactacctcagttgccacactttgccta---acttttctgcctaaggt-tagttattcaattcgaact---actaacctt---------------
| |  ||||| ||||| ||||| || ||| | ||||| ||||| |||||||| |||||||| |||||||| || |||||||||||||| || ||||| |||||||    | | ||||   | |      || | | | ||| |   |     |  | ||   ||| ||   |  |  || | ||  || |     ||||   |  ||   |               
TCTGTTTTGCAGGTATTATTGTGATATGTTTGGATGAGCTCCTTCAGAAAGGGTATGGTTTAGGATCTGGAATTTCTCTGTTCATTGCCACTAATATATGgtaagttttcttgttaataacttac--aatttattccatcattgagcttgtgtctcatagaaactattgaacaaactgtatggtcttttatcaaaaacttgtatgaattctctcattatgttgcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv19s0014g01020.t01 (Vitis vinifera), 5'ss of exon 3

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttgg--ttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaatt-cgaactactaacctt-----------------------------------------------------------------------
| |  ||||||||||||||||| || ||| |||||||||| || |||||||| |||||  | || ||||| || ||||| ||||| || || |||||||||| ||||| |        |  | ||  ||   |   | | ||  ||   |   | |    | | ||   ||| ||   |||  |    | | |  ||                                                                             
TCTGTTTTGCTGGTATCATTGTGATATGTTTAGATGAACTTCTGCAGAAAGGATATGGGCTTGGCTCTGGAATTTCTCTTTTCATAGCAACTAATATCTGgtgagcatctggttctttttctgggattttttttattaatttatcattttgaacatggaatatttgaagaagctttactatctagcagccagcgtctggtgaatgtggtctcatttctgggttgaccattaactctactgtcaaatagtgacaattgttttgatcaattggcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv00s1338g00020.t01 (Vitis vinifera), 5'ss of exon 2

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttgg---ttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaatt-cgaactactaacctt---------------------------------------------------------------------------------
| | |||||||||||||||||| || ||| |||||||||| || |||||||| |||||  | || ||||| || ||||| ||||| || || |||||||||| ||||| |        |  | ||   ||   ||  | | ||   |   |   | |    | | ||   ||| ||  |  |  |    | |    ||                                                                                       
TCTGCTTTGCTGGTATCATTGTGATATGTTTAGATGAACTTCTGCAGAAAGGATATGGCCTTGGCTCTGGAATTTCTCTTTTCATAGCAACTAATATCTGgttagcatctggttctttttctgggattttttttaattaatttatgattttgaacatggaatatttgaagaagctttatcgtctagcagccagtgtctggtgaatggtgggcccattttctgggtgaaccattaactctactgtcaagtagtgattgctaatgaattgttttgatcaattggcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 2

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttgg---ttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaatt-cgaactactaacctt---------------------------------------------------------------------------------
| | |||||||||||||||||| || ||| |||||||||| || |||||||| |||||  | || ||||| || ||||| ||||| || || |||||||||| ||||| |        |  | ||   ||   ||  | | ||   |   |   | |    | | ||   ||| ||  || |  |    | |    ||                                                                                       
TCTGCTTTGCTGGTATCATTGTGATATGTTTAGATGAACTTCTGCAGAAAGGATATGGCCTTGGCTCTGGAATTTCTCTTTTCATAGCAACTAATATCTGgttagcatctgcttctttttctgggattttttttaattaatttatgattttgaacatggaatatttgaagaagctttattgtctagcagccagtgtctggtgaatggtgggcccattttctgggtggaccattaactctactgtcaagtagtgattgctaatgaattgttttgatcaattggcag

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S323_56V6.1 (Physcomitrella patens), 5'ss of exon 3

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcata-----ttaagggcctgtttggttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaattcgaactactaacctt
| ||||| ||||| |||||||| |||||||| |||||  | |||||||| || |||||  ||||||| || || ||||| |||||||| || ||||||||||| ||  |      |    |||||      | |  |    |||||  |  |  |     |||  ||||| |  |  | |  ||         |   |||     
TCTTCTTCGCTGGAATCATTGTTATCTGTCTTGATGAGTTGCTACAGAAGGGTTATGGACTGGGATCCGGAATTTCTCTTTTCATTGCCACCAATATCTGgtaggctcagttttctttatgcctgcaattcttagaaatgaagttgagagccaatat---actcgtctgcttgcgaattgaaatctggagtttatctctatgt--

upper sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ15673 (Selaginella moellendorffii), 5'ss of exon 2

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatattaagggcctgtttggttcactacctcagttgccacactttgcctaacttttctgcctaaggttagttattcaattcgaactactaacctt
| ||||| ||||||||||||||||| || || ||||||||||| ||||| || || ||  | ||||| || |||||  ||||||| || || || ||||||| ||      |    ||| ||   ||  |  |     ||    |  ||    | ||| |                                        
TCTTCTTCGCTGGTATCATTGTCATTTGCCTGGATGAACTCCTCCAGAAGGGATACGGGCTTGGATCGGGAATCTCGTTGTTCATAGCCACCAACATCTGgtgag------agaaaccttttccttttccagctctgattatttctattg---tgactgtgacag-----------------------------------

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|211304895|gb|FL147365.1|FL147365

EST:     GGCTATGGTTTGGGATCTGGCATCTCTCTGTTCATTGCTACGAATATCTG                         TGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCG
genomic: GGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatat ... gtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCG

EST: gi|211338839|gb|FL045916.1|FL045916

EST:     GGCTATGGTTTGGGATCTGGCATCTCTCTGTTCATTGCTACGAATATCTG                         TGAGAATATCATCTGGAAGGCGTTTASCC-AACAACCATCAACAGTGGGCG
genomic: GGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatat ... gtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCG

EST: gi|211304896|gb|FL147366.1|FL147366

EST:     GGCTATGGTTTGGGATCTGGCATCTCTCTGTTCATTGCTACGAATATCTG                         TGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCG
genomic: GGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatat ... gtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCG

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: 169

TTTTCTTTGCTGGTATCATTGTCATCTGTCTAGATGAACTCCTACAGAAAGGCTATGGTTTGGGATCTGGTATCTCTCTGTTCATTGCTACGAATATCTGgtaagcatat ... gtccatgtagTGAGAATATCATCTGGAAGGCGTTTAGCCCAACAACCATCAACAGTGGGCGTGGTGCTGAATTTGAAGGGGCAGTCATTGCATTGTTCCATCTATTGATT

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 183

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 224