ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag

Basic information

species	Zea mays
transcript	GRMZM5G822591_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 26

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag
| | ||||| || ||||||||||||||||| || || ||||||||||||||||| ||||||||||||||||||||||| || |||||||||||||||||||||  ||      |||| ||  || | ||| ||||| || |  | ||  | |  |  |    |    ||   || ||  |   |||    | | | |                  
ATCTTTGAATGAGCTTTATGTTGAAGAGGAGGATTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAGAAGgta--aagcgattagatgat--tgtactgcttattgatgttatttttccttttttttt-tattttgaataactaatggctgg-aatgccttgatcag------------------

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 26

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag
||| ||||| || ||||||||||||||||| ||||| ||||||||||||||||| ||||||||||||||||||||||| || |||||||||||||| ||||||  ||      | || ||  || | ||| ||||| || |  | ||  | |  |  |    |    ||   || ||  |   |||    | | | |                  
AGCTTTGAATGAGCTTTATGTTGAAGAGGAGGACTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAAAAGgta--aagcgattatatgat--tgtactgcttattgatgttatttttccttttttattttattttgaataactaatggctgg-aatgccttgatcag------------------

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G06720.1 (Glycine max), 5'ss of exon 26

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagata--atcttgcagtgcctatt-gctgctgctgttgttgtaat--cgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag
 || ||||| ||| |||||| ||| || |||||||| || ||||||||||||||| | ||| ||||||| ||||| || || ||||||||||| ||||||||  |   ||   |  |    ||||    || | ||| ||       |   |   |||    || ||    ||   |   ||  || | ||| | |  | |          |  ||||||
GGCTTTGAATGAAATTTATGCTGAGGAAGAAGACTATGACAGACTCCGTGAATCAATAGATCTGCATGATAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttacttatcttttgtcttattttgacaattagcaaaaatcgagatcagaatgttatgggaaatttaaaatatttgaattattattgattggcttcaacaatacacatgagcag

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA14G37510.1 (Glycine max), 5'ss of exon 24

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag
||| ||||| ||| |||||||||| ||||| ||||| || ||||| | ||||||| | ||| ||||||||||||| || || ||||||||||| ||||||||    |||   | |   ||||| ||      ||||||     ||   |   |||| | |   | |  ||      |   |||  ||| |  |  ||| |   ||| |       
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtg---aatcttccgt--atctttcaa-----attgctaaaattgaaatctgaatcttactgagaaacttaggg--gtcatttggtttgaagaaatgtttttttttttttct---

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 26

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgc-gatgcatat---tgttactgctttttaatttaataacctgtgtccatttctggagcag
||| ||||| ||| |||||||||| ||||| ||||| || ||||| | ||||||| | ||| ||||||||||||| || || ||||||||||| ||||||||    |||   |   | ||||| ||      ||||||     ||   |   |||| | | ||  ||| |   |||   || |||  | ||| ||   |||| | |||||         
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtg---aatcttcc--ttatctttcaa-----attgctaaaattgaaatctgaatcttaccgagacatttgggtgtgtttggtttgcattttcattttctgttttcattt---------

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 25

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgct-gctgttgttgtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag
|||| |||| ||| | |||||||| ||||||||||| || ||| | || || ||| ||||| ||||||| ||||||||||||||||| ||||| ||||||||      ||||   ||    |     ||   | |  |  |   |    || ||      |  || ||  | ||| |  |||  |||  |                          
AGCCCTGAATGAAATATATGTTGAGGAGGAAGACTATGATAGATTGCGCGAGTCAATTGATTTGCATGATAACTTTGACCAAATAGGCCTTGCACAGAAGgt------tagctgcatttattcttcatgttgactatttttcagttcaattataggaaaccagtggat--tattatta-tttggaatgcag-------------------------

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G38580.1 (Glycine max), 5'ss of exon 26

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagata--atcttgcagtgcctatt-gctgctgctgttgtt--gtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag
||| ||||| ||| |||||||||| || ||||||||||| |||||||| |||||| | ||| |||||||||||||||| || ||||||||||| ||||||||  |     |  |  |    ||||    || | ||| ||     |||   |   | | |  ||  |    ||   |   ||  || | ||| | |  | |     || | |  ||||||
AGCTTTGAATGAAATTTATGTTGAGGAAGAAGACTACGACAGACTCCGAGAATCAATAGATTTGCATGACAACTTTGATCAGATAGGTCTTGCACAGAAGgtgaatctcggttatcttttgtcttattttgacaattagcaaaatctgagatcaggaagttatggaaaatttaaaatgtttgaattattattgattggcttcaa--caatacatgagcag

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 26

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgcgatgcatat-tgttactgctttttaatttaataacctgtgtccatttctggagcag
 || ||||| |   |||||||||| ||||||||||| || ||||| ||||||||| ||||||||||||| |||||||| || || || ||||| ||||||||  |  |||      | |  |   | ||  | |   ||  | | |   || | | ||    | ||||    ||  || | | |  || |  |                       
GGCTTTGAATGGGATTTATGTTGAGGAGGAAGACTATGACAGACTGCGTGAATCAATTGATATGCATGATAACTTTGATCAGATTGGCCTTGCACAGAAGgtggagtataatttctttaggtgcaattgtttttctttgtggttcta--tgcactggttgatttcataagccttgttggtatgtgtttgagcag----------------------

upper sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaatagccagataatcttgcagtgcctattgctgctgctgttgttgtaatcgtgcgatgcatattgttactgctttttaatttaataacctgtgtccatttctggagcag
||| || || |   || |||| || ||||| ||||| || ||||| || |||||| | ||||||||||| ||||||||||| ||||| ||||| ||||||||   | | |   |  | || |||       || || || |   |   |  ||| |     ||| | ||     ||  |  |   | |    |                      
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgt------taatgttggta--ggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag---------------------

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|31352863|gb|CD437220.1|CD437220

EST:     AATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAG                         CTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaata ... tctggagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTAC

EST: gi|116818665|gb|EC861713.1|EC861713

EST:     ATCAGTTGATATGCATGACAACTTTGAACCAAATAGGTCTTGCCCAGAAG                         CTTGAGAAACCTGAATTGCTGGAGATGAGGAGGAATGCTGCCTACATTTAC
genomic: ATCAGTTGATATGCATGACAACTTTGA-CCAAATAGGTCTTGCCCAGAAGgtacaaaata ... tctggagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTAC

EST: gi|67014450|gb|CO443199.1|CO443199

EST:     AATCAGTTGATATGCACGACAACTTTGACCAAATAGGTCTTGCCCAGAAG                         CTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaata ... tctggagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTAC

EST: gi|67016082|gb|CO444831.1|CO444831

EST:     AATCAGTTGATATGCACGACAACTTTGACCAAATAGGTCTTGCCCAGAAG                         CTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaata ... tctggagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTAC

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: 47 (upstream exon), 49 (downstream exon)
Score: 406

AGCCTTGAACGAACTTTATGTTGAAGAGGAAGACTACGAGAGACTCCGTGAATCAGTTGATATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaata ... tctggagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATTGCTGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAATCCATTGCTCTATCAAAGAAAGATA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 268

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 371