ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcactagttactaatgagaccttaatctcactagttactaacgagtctcattttctgtattccaggcagtactctgtttcagatttttaggtac...

Basic information

species	Zea mays
transcript	GRMZM2G062761_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 5'ss of exon 5

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcactagttactaa-tgagaccttaatctcactagttactaacgagtc-tcattt-tctgtattccaggcagtactctgtttcagatttttaggtac
||| ||||| |||||||||||||||||||| |||||||||||||| |||||||| ||||||||||||||||| || ||||||||||| ||  |  | |||||||  ||| |  || | |  |    |||| |    | |      ||  || || ||| |  ||||| |      || | || | |     ||| || |  ||
GCTTACAGGAAAGCCACTCTTTCCAGGGAAAAATGTTGTGCATCAATTGGATCTCATGACTGATCTACTTGGCACTCCTTCAGCAGAATCCCTTGCTAAGgtatattcaatccttgcaagcttgtgccttcactcaagtgcaatgtattgactcctcactagtctgtgtgtt---cacttctttatgcagaattcttcgcaac

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcactagttactaatgagac-cttaatctcactagttactaacgagtctcattttctgtattccaggcagtactctgtttcagatttttaggtac
|||||| ||||||||| | ||||| ||||| ||||||||||| || |||||||| ||||||||| | ||||| |||||| |  | ||||| |   | | |||  |   |  |    |||||  ||   ||  |   |  | || |  | |  | | |  |  | || |    | | | ||   ||||  || ||    |  
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaaatcaattgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt-

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA05G33980.1 (Glycine max), 5'ss of exon 5

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcactagttactaatgagac-cttaatctcactagttactaacgagtctcattttctgtattccaggcagtactctgtttcagatttttaggtac
|||||| ||||||||| | ||||| ||||| ||||||||||| || |||||||| ||||||||| | ||||| || ||| |  | ||||| ||  | | |||  |   |  |    |||||  ||   ||  |   |  | ||    | |  | | |  |  | || |    | | | ||   ||||  || ||    |  
GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGGACTCCTCCTCCTGAGTCCATTGCAAGGgttagtatatcaaaatctaatttgaagttttctgaaatcaattgtgcaggcttgtgacatggtataatgggagtaattctaaatttccaatgttcctttt-

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcact-agttactaatgagaccttaatctcactagttactaacgagtctcattttctgt-attccaggcagtactctgtttcagatttttaggtac-----
|||||| ||||||||| | ||||| ||||||||||| ||||| || |||||| ||||||||||| | |||||||| ||| |  | ||  ||||  | | |||  | |     |||||   ||      ||    |  |||   |||  |  |    | ||||||| ||  |              || | | |||||   ||     
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctat------ttctgtttgctaaa-acttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 5'ss of exon 5

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcactagttactaatgagaccttaatctcactagttactaacgagtctcattttctgtattccaggcagtactctgtttcagattt-ttaggtac-----
||| ||||| || || || ||||| ||||| ||||| ||||| ||||||||||| ||||||||| | ||||| || ||||| || || || ||| | | |||  | |  ||  || |||||      ||  |||    | | | | || || || ||| |   | ||||| |  | || || | | |  ||  |||| |       
GCTTACAGGAAAACCGCTGTTTCCGGGGAAAAATGTAGTGCACCAGTTGGATCTCATGACTGATTTGCTTGGCACTCCTTCTGCTGAATCAATCGCAAGGgttagttatctcatt-ctaattctgttttt-tctggtcactaattgac-agactgattgt--atgttccaagtgg-acactctctgaatttggttagctttctttt

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 5

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcactagttactaatgag--accttaatctcactagttactaacga--gtctcattttctgtattccaggcagtactctgtttcagatttttaggtac
| | || || |||||||| || || |||||||||||||| |||||| ||||||||||||| ||  | ||||| |  || ||  ||||  |  |    | |||| |  |||        |||     | |||  |    ||   | | |  ||  |  || | |   |  ||  | || | | |   || | |||| |       
GTTGACCGGAAAGCCACTTTTCCCTGGGAAGAATGTTGTTCATCAGCTGGATCTTATGACAGACATGCTTGGAAGTCCATCTTCAGAAACCGTTCAAAGGgtaagagcacagtcctgaaatactttaacttggtgaggctcaatgcaagtgaaagaatcctatggagagttttaagcggca-taaattcctgattctgtct---

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|5871276|gb|AW017747.1|AW017747

EST:     ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAG                         ATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT
genomic: ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcac ... accattgcagATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT

EST: gi|76934717|gb|DV173988.1|DV173988

EST:     ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAG                         ATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT
genomic: ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcac ... accattgcagATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT

EST: gi|78179666|gb|DV550039.1|DV550039

EST:     ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAG                         ATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT
genomic: ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcac ... accattgcagATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT

EST: gi|7844595|gb|AW787817.1|AW787817

EST:     ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAG                         ATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT
genomic: ATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcac ... accattgcagATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCT

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: 45 (upstream exon), 49 (downstream exon)
Score: 53

GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcac ... accattgcagATAAGGAATGAGAAAGCTCGACGATACATGAACAATATGAGGAAAAAGCCTCGGGTTCCCTTTACTAAAAAGTTTCCAGGGATAGATCCTATGGCTCTCC

Block sizes: 36 (upstream exon), 38 (downstream exon)
Score: 25

Block sizes: 45 (upstream exon), 47 (downstream exon)
Score: 30