ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatctctctctactgccttaggaataaccaccgcaacatccaaatccttcagagagctcaccaactaattctttgtttcgttttctgtttcag

Basic information

species	Zea mays
transcript	GRMZM2G152827_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G152827_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g52860.1 (Oryza sativa), 5'ss of exon 5

GTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatctctctctactgcct-taggaataaccaccgcaacatccaaatccttcagagagctcaccaactaattctttgtttcgttttctgtttcag
| || |||||||||||||| || |||||||| || |||||||| || |||||||||||||| ||||| ||||| ||||| || ||||| ||||||||||||| |||||  || |    |||   |     |||       |||||  |||  |||  |||   |||   ||| ||      |||   | |   ||||||
GCCTTTTCACTAGAGGACTGCCCCTTCGTATTGTTATGATTGGAACTCTTACTGGTGCTCAATGGGGTATTTATGATGCTTTTAAAGTCATGGTTGGACTgtaagtattccttttgcttgctaattaatttaattgttagaacattaaaaggcttttgaggaatcaaggacttatggcccatttatatat---tttcag

upper sequence: GRMZM2G152827_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA16G05450.1 (Glycine max), 5'ss of exon 6

GTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatctctctctactgccttaggaataaccaccgcaacatccaaatccttcagagagctcaccaactaattctttgtt----tcgttttctgtttcag--
||||||| ||  | || ||||| || ||||| || |||||||| || |||||||| || || |||||||| || |||||||||||||||   || ||| ||| ||| |       | ||   ||    |||     |   || | || ||   |       ||     | | |   | |  |    |   ||||   |||    
GTCTCTTTACCCGTGGTCTTCCCCTCCGTATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttacacaattgctagttttatgatagggttccatactttcatatatattgttttccttcagtattgacgttctaatgaaataaatttccccttcccag

upper sequence: GRMZM2G152827_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA19G27380.1 (Glycine max), 5'ss of exon 5

GTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatctctctctactgccttaggaataaccaccgcaacatccaaatccttca--gagagctcaccaactaattctttgtttcgttttctgtttcag
||||||| ||  | || || || || || || || |||||||| || |||||||| || || |||||||| || ||||||||||||||  | || ||| ||| ||| |       | ||   | |   |||       ||   |   | |||||||    |  |   | ||  |  | |||    | ||  | |      
GTCTCTTTACGCGTGGTCTCCCCCTCCGAATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTCTTCGTCGGATTgtaagtttacacaattgctag-tcaatgatagg-gttccattctttcattccttcatcatggacgtgctaatgagattttttcccccttcccag------

upper sequence: GRMZM2G152827_T01 (Zea mays), 5'ss of exon 5
lower sequence: EFJ31006 (Selaginella moellendorffii), 5'ss of exon 5

GTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatctctctctactgccttaggaataaccaccgcaacatccaaatccttcagagagctcaccaactaattctttgtttcgttttctgtttcag
 |||||||||  | || || || || |||||||| |||||||| || || ||||| || ||||||||||| ||||| || ||||||||  | |||||||||| ||| |||| ||||  |  |||  |   ||  | | |||    | | |||                                              
CTCTCTTCACCCGGGGGCTACCGCTGCGTATCGTGATGATTGGAACACTCACTGGAGCACAGTGGGGAATCTACGACGCCTTCAAAGTCTTCGTTGGACTgtaagtttctcgctctcatctcttgtggggaa--atctcaaatctctattccag--------------------------------------------

upper sequence: GRMZM2G152827_T01 (Zea mays), 5'ss of exon 5
lower sequence: EFJ34707 (Selaginella moellendorffii), 5'ss of exon 5

GTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatctctctctactgccttaggaataaccaccgcaacatccaaatccttcagagagctcaccaactaattctttgtttcgttttctgtttcag
 |||||||||  | || || || || |||||||| |||||||| || || ||||| || ||||||||||| ||||| || ||||||||  | |||||||||| ||| |||| ||||      |  ||||    ||   |   || | |                                                  
CTCTCTTCACCCGGGGGCTACCGCTGCGTATCGTGATGATTGGAACACTCACTGGAGCACAGTGGGGAATCTACGACGCCTTCAAAGTCTTCGTTGGACTgtaagtttctcgctctctcttgtggggaaatctcaaatctctattccag-------------------------------------------------

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|113816050|gb|DW935495.1|DW935495

EST:     TGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCTAGAGGCTGAATTGA
genomic: TGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGC-AGAGGCTGAATTGA

EST: gi|31612075|gb|CD568697.1|CD568697

EST:     ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACCCCTGCCCCAGCAGCAGAGGCTGAATTGAA
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA

EST: gi|166544486|gb|EG234876.1|EG234876

EST:     ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTG
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTG

EST: gi|5928934|gb|AW056226.1|AW056226

EST:     ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA

EST: gi|149100649|gb|EE186737.2|EE186737

EST:     ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA

EST: gi|116817564|gb|EC860439.1|EC860439

EST:     ACTGGTGCTCAGTGGGGAATT-ACGATGCATCCAAAGTGATGGTTGGAAT                         CCCGACAACGGGA
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGA

EST: gi|110965377|gb|EE185277.1|EE185277

EST:     ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA

EST: gi|113823717|gb|DW941553.1|DW941553

EST:     GGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA
genomic: GGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA

EST: gi|166547312|gb|EG315874.1|EG315874

EST:     ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCTCAGCAGCAGAGGC
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGC

EST: gi|15080205|gb|BI388980.1|BI388980

EST:     ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA

EST: gi|67021830|gb|CO450579.1|CO450579

EST:     ACTGGTGCTCAGTGGGNAATTTACGATGCATTCAAAGTGATGGTTGGACT                         CCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA
genomic: ACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAA

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: 48 (upstream exon), 49 (downstream exon)
Score: 416

GTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACGATGCATTCAAAGTGATGGTTGGACTgtgagtatct ... tctgtttcagCCCAACAACGGGAGGTGTTACACCTGCCCCAGCAGCAGAGGCTGAATTGAAAGCCAGTGCTTGATTTTTTTTTTCTGTGTTCCCTGAGATCATATTTGGT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 544

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 361