ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTAGAGCGACTCCTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagttctataaatgagtaaagtggccctgatgattgttgatcttagcattgcttgctctgcactactggaaaactatgggacgacatgacatgc...

Basic information

species	Zea mays
transcript	GRMZM2G314386_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G314386_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os04g49530.1 (Oryza sativa), 5'ss of exon 5

TTAGAGCGACTCCTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgt-aattaagtt---ctat--aaatgagtaaagtggccctgatgattgttgatcttagcattgcttgctctgcactactggaaaactatgggacgacatgacatgc
|||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||| || |||||||||||||| ||| ||||| | ||||      | ||    ||||||  |    ||||| | | | |  |   |||     |||    |||  | ||   || || |       |     |   
TTAGAGCGACTCCTTGGAGCCCTTTCTGCACACATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACCGTTCCATCCTTGGTTGAGAAAGAAGgtgagttaaaccagaccattgggatgagttgacgaaccctgtttactttgtaatatagagcaacttagggtgccatgct---aagctgttcccttgctcagta---

upper sequence: GRMZM2G314386_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA09G32900.1 (Glycine max), 5'ss of exon 5

TTAGAGCGACTCCTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagttctataaatgag-taaagtggccctgatgattgttgatcttagcattgcttgctctgcactactggaaaactatgggacgacatgacatgc-----------
 | ||||| |||   || || |||||||| |||||||||||||||||| |  ||||||||||  | || |||| |   ||||| ||   ||| ||| |||||| || |  |||  || |    |    |||  |      ||| || | ||  ||        |  |  | | |    |  | |||     | |  |               
GTTGAGCGTCTCTACGGTGCACTTTCTGCTCATATGTGGCCTGGAATGGTATTGAAATCTGGCGATAGGATAAATCAACCATCATTTCCTGAGAAAGAAGgtattttacctcttcaattttccttctttggagcatgctcttgctgcttttgtcaacatagaataagtgcaagtactgattt-tggtttatccttccccctctccccctcag

upper sequence: GRMZM2G314386_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA16G21560.1 (Glycine max), 5'ss of exon 5

TTAGAGCGACTCCTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaag---ttctataaatgagtaaagt--ggccctgatgattgttgatcttagcattgcttgctctgcactactggaaaactatgggacgacatgacatgc----------------------
 | ||||| |||   || || |||||||| |||||||||||||||||| |  |||||||||| || || |||| |   |  || ||    || ||| ||||||  | |    |||| ||| |        |  |  | || |||||| || | ||  ||        |  |  ||  |       |||    |  |    |   |                      
GTTGAGCGTCTCTACGGTGCACTTTCTGCTCATATGTGGCCTGGAATGGTATTGAAATCTGGCAATAGGATAAATCAACTGTCATTTCCAGAGAAAGAAGgtatcttatctcttctttaattttccttctttggagcatgctgattgctgcttttgtcaacatagaataagtgctgattttgttttatccttctcctctcctccccccgcccttgcccccacaccag

upper sequence: GRMZM2G314386_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT5G65960.1 (Arabidopsis thaliana), 5'ss of exon 5

TTAGAGCGACTCCTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgt-aattaagttctataaatgagtaaagtggccctg-atga-ttgttga----tcttagcattgcttg---ctctgcactactggaaaactatgggacgacatgacatgc--------------------------------------------------------------------------
 | || || ||  |||| |||||||| || |||||||||||||| |||||||||||||||||  | || |||| ||  ||    ||   | ||    ||||| ||||   |  |  |  |   |          || |||| ||  |||    || |  |   | | |    ||||  | ||  | ||    | |  ||| |    |  |                                                                          
GTTGAACGTCTATTTGGTGCTCTTTCGGCTCATATGTGGCCTGGGATGATTCTGAAATCTGGTGATAGGATAAATGAACCTGTGTTACCTCAAGGGGAAGgttaattgtttcttccactttcctctcccatatatgtatgagttcctgaaatgtcctttcccggttagagtttctgttcgaccaggaagtggtagaccgaaactcgacccagataagaaatcctggtgaggacatttcatttccacttggattcatgttgattgggtcttatatttcctctcag

upper sequence: GRMZM2G314386_T02 (Zea mays), 5'ss of exon 6
lower sequence: Vv07s0031g02260.t01 (Vitis vinifera), 5'ss of exon 5

TTAGAGCGACTCCTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagttctataaatgagtaaagtggccctgatgattgttgatcttagcattgctt-gctctgcactactggaaaactatgggacgacatgacatgc----
 | ||  || |||| || || |||||||| |||||||||||||||||||  |||||||||||  | |  ||||  |  ||||| |||  |||||| ||||||  |||  | ||||   |        || |  |  |  || ||  || |   | |  || ||||| || |    ||      ||     |  ||   ||     
GTTGATAGAATCCTGGGTGCACTTTCTGCTCATATGTGGCCTGGAATGACCCTGAAATCTGGTGATAAGATAATGGAACCATCATTGCCTGAAAACCAAGgtt-ttagatgctatc--ttctctgcctgtcttttttttttttttttccttttactctttagctctacattcagcgagctaattgatttcatctggtctgttcag

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|60397446|gb|DN230262.1|DN230262

EST:     AATAACTGTCCCATCCTTGGTTGAAAAACAAG                         AATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC
genomic: AATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagt ... attctgacagAATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC

EST: gi|76919525|gb|DV167761.1|DV167761

EST:     TCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAG                         AATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC
genomic: TCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagt ... attctgacagAATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC

EST: gi|76919523|gb|DV167760.1|DV167760

EST:     TGAAAAACAAG                         AATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC
genomic: TGAAAAACAAGgtaattaagt ... attctgacagAATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC

EST: gi|149044644|gb|EE047616.2|EE047616

EST:     AACAGAATAACTGTCCCATCC-TGGTTGAAAAACAAG                         AATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC
genomic: AACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagt ... attctgacagAATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTC

EST: gi|71775328|gb|DR973206.1|DR973206

EST:     TCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAG                         AATCCACAGATGATGAATCCAACTATGA
genomic: TCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagt ... attctgacagAATCCACAGATGATGAATCCAACTATGA

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: 100

TTAGAGCGACTCCTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAATAACTGTCCCATCCTTGGTTGAAAAACAAGgtaattaagt ... attctgacagAATCCACAGATGATGAATCCAACTATGATTTTGAGTACGAGGTCTTGTCTCATGGATCCGATGACCAGTGGGAATTTATTGGAGAGACAAGTACATCCAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 89

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 60