ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttatttcgtgtgtaggtttacatgcatatgatgtgtttttatgattcagtgcctttaactcctcaatttcacag

Basic information

species	Zea mays
transcript	GRMZM2G178618_T01
intron #	15
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 5'ss of exon 15

GACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttatttcg-tgtgtaggtttacatgcatatgatgtgtttttatgattcagtgcctttaactcctcaatttcacag
 || ||||| ||||| |||||||||||||| |||| |||  | |||||||||||||||||||| ||||||||||| || ||||||||  |||||||| |||||    | || || |  |  |||  ||||  |    || | ||| |||| |||  || ||  ||||  ||             
AACTGAATATTCAGTCAATGTTGTGAAGCACATTTATGACGGGCATGTTGTGCTCCAATACAATTGTACCAATACTATACCTGAACAGCTGCTTGAAGAGgtaaacgattttttccactcagtatttttatttatggatta-gtgcttttctgaa-caatgtttttatttcag-----------

upper sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 15
lower sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 15

GACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttatttcgtg--tgtaggtttacatgcatatgatgtgtttttatga-ttcagtgcctttaactcctcaatttcacag
||| |||||  |||| |||||||| || || ||||||||||| ||||||||| | ||||||||||| || || || || || || |||||  | ||| | |||  | |||| | ||     | |    || ||| | ||| |||    |  | |  ||| ||    ||    |||| ||| ||   
GACAGAATATGCAGTTAATGTTGTTAAACACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCACAAACACGATACCAGAGCAATTATTGGAAGATgta-atgacttgtatcaatactttgcaatttcatac-tataatgcaactccaggtcttctgtataatttttccctctattccag--

upper sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 15
lower sequence: GLYMA12G04820.1 (Glycine max), 5'ss of exon 15

GACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttatttcgtg--tgtaggtttacatgcatatgatgtgtttttatga-ttcagtgcctttaactcctcaatttcacag
||| |||||  |||| |||||||| ||||| ||||||||||| ||||||||| | ||||||||||| || || || || || || |||||  | ||| | |||  | |||| | |||    ||||   || ||| | ||  |||    |  | |  ||| ||     |   ||||| ||| ||   
GACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCACAAACACGATACCAGAGCAATTATTGGAAGATgta-atgacttgtatcgatactgtataatttcatac-tagaatgcaactccaggtcttctgtataaatttttcctctattccag--

upper sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 15
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15

GACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttatttcgtgtgtaggtttacatgcatatgatgtgtttttatgattcagtgccttt--aactcctcaat-----ttcacag
 || |||||  | || |||||||| ||||| ||||||||| | ||||||||| |||| |||||||| ||||||||||||||||| |||||||| ||| | |||  | ||  |||| |     || |  || | ||| |  | ||   |||      | | || ||  ||||  || ||     ||  |||
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgta-atgaccaatttagaac--agctgcac-ttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag

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|40334153|gb|CK368223.1|CK368223

EST:     TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAG                         GTTATTGTTTTGGTTGATGCTTCTGAGGCTGACGAATTTTTAGAAGTTGCT
genomic: TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aatttcacagGTTATTGTTTTGGTTGATGCTTCTGAGGCTGACGAATTTTTAGAAGTTGCT

EST: gi|71773316|gb|DR971224.1|DR971224

EST:     TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAG                         GTTATTGTTTTGGTTGATGCTTCTGAGGCTGACGAATTTTTAGAAGTTGCT
genomic: TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aatttcacagGTTATTGTTTTGGTTGATGCTTCTGAGGCTGACGAATTTTTAGAAGTTGCT

EST: gi|31364677|gb|CD449032.1|CD449032

EST:     AGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAG                         GTTATTGTTTTGGTTGATGGCTTCTGAGGCTGACGAATTTTTAGAAGTTGC
genomic: TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aatttcacagGTTATTGTTTTGGTTGATG-CTTCTGAGGCTGACGAATTTTTAGAAGTTGC

EST: gi|67010419|gb|CO439168.1|CO439168

EST:     TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAG                         GTTATTGTTTTGGTTGATGCTTCTGAGGCTGACGAATTTTTAAAAAGT-GC
genomic: TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aatttcacagGTTATTGTTTTGGTTGATGCTTCTGAGGCTGACGAATTTTTAGAA-GTTGC

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), 45 (downstream exon)
Score: 241

GACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aatttcacagGTTATTGTTTTGGTTGATGCTTCTGAGGCTGACGAATTTTTAGAAGTTGCTTCAAAGCCTTTAGAATCATTACCATATGATTCTCCTGGGCAGACCTTTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 194

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 240