ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggtttaaaagcaatatgatgtgtttttatgattcattgcttttaactcctcaattccacag

Basic information

species	Zea mays
transcript	GRMZM2G036034_T01
intron #	15
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G415729_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 5'ss of exon 15

GACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggtttaaaagcaatatgatgtgtttttatgattcattgcttttaactcctcaattccacag
 |||||||| ||||| |||||||||||||| |||| ||| || |||||||||||||||||||| ||||||||||| || ||||||||  |||||||| |||||    | || ||     ||    ||| |       || | ||| |||| |||  || || |||||  ||             
AACTGAATATTCAGTCAATGTTGTGAAGCACATTTATGACGGGCATGTTGTGCTCCAATACAATTGTACCAATACTATACCTGAACAGCTGCTTGAAGAGgtaaacgattttttccactcagtatttttatttatggatta-gtgcttttctgaa-caatgtttttatttcag-----------

upper sequence: GRMZM2G415729_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 15

GACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggtttaaaagcaatatgatgtgtttttatgattcat-tgcttttaactcctcaattccacag
||| |||||  ||||||||||||| || || ||||||||| | ||||||||| | ||||||||||| || || || || || || |||||  | ||| | |||  | |||| | |      |  |         | ||| |||    |  | |  |  | |    ||    |||| ||||||   
GACAGAATATGCAGTTAATGTTGTTAAACACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCACAAACACGATACCAGAGCAATTATTGGAAGATgta-atgacttgtatcaatactttgcaatttcatactataatgcaactccaggtcttctgtataatttttccctctattccag--

upper sequence: GRMZM2G415729_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA12G04820.1 (Glycine max), 5'ss of exon 15

GACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttg----tgcataggtttaaaagcaatatgatgtgtttttatgattcat-tgcttttaactcctcaattccacag
||| |||||  ||||||||||||| ||||| ||||||||| | ||||||||| | ||||||||||| || || || || || || |||||  | ||| | |||  | |||| | | |    || |||  || |     | ||  |||    |  | |  |  | |     |   ||||| ||||||   
GACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCACAAACACGATACCAGAGCAATTATTGGAAGATgta-atgacttgtatcgatactgtataatttca----tactagaatgcaactccaggtcttctgtataaatttttcctctattccag--

upper sequence: GRMZM2G415729_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15

GACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggt-ttaaaagcaatatgatgtgtttttatgattcattgcttttaactcctcaattcc-----acag
 || |||||  | ||||||||||| ||||| ||||||||| | ||||||||| |||| |||||||| ||||||||||||||||| |||||||| ||| | |||  | ||  |||| |  ||   |   |  | |   | |||  | |  |   || |  |   || |||||  || || |       |||
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgta-atgaccaatttagaacagctgcacttcatgttttctgacct-tactcgggact--tccattgtaacttttctatacttgttggcag

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|211006550|gb|FL418097.1|FL418097

EST:     TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAG                         GTTATTGTTTTTGTTGATGCTTCTG
genomic: TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aattccacagGTTATTGTTTTTGTTGATGCTTCTG

EST: gi|31358343|gb|CD442700.1|CD442700

EST:     TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAG                         GTTATTGTTTTTGTTGATGCTTCTGAGGCTGATGAATTTTTAGAAGTTGCT
genomic: TGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aattccacagGTTATTGTTTTTGTTGATGCTTCTGAGGCTGATGAATTTTTAGAAGTTGCT

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: 46 (upstream exon), 49 (downstream exon)
Score: 285

GACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaact ... aattccacagGTTATTGTTTTTGTTGATGCTTCTGAGGCTGATGAATTTTTAGAAGTTGCTTCGAAGCCTTTAGAATCATTACCATATGATTCTCCTGGGCAGACCTTTG

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 245

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 169