ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaacatctgtagacagtaatatttgcattatcaatgttcgtaatacctttttgtccttataatgaaggttgtaaaccgtgcag

Basic information

species	Zea mays
transcript	GRMZM2G056569_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 5'ss of exon 3

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaacatctgtagacagtaatattt--gcat-tatcaatgttcgtaatacctttttgtccttataatgaaggttgtaaaccgtgcag
||| |||||||||||||| || ||||| || || || || ||||| |||||||| ||||| ||||| |||||||||||||||||  | ||||||||||||||       |||  |||     ||  | ||  | ||  || |    |  |||    ||  | |  || | ||||| ||||| || |||||||
CATCGAAAGTCTTGATCCAGCATTGCTACGCCCTGGTCGCATAGATCGGAAGATAGAATTTCCTCTGCCAGATATTAAAACTAGGCGGCGCATCTTCCAGgtaaatatccattagtatcttttagaacttcagaatgcatgataactgataagcagttcctttggttctcatgaatgttgtgaatcgtgcag

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA03G32800.1 (Glycine max), 5'ss of exon 4

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaacatctgtagacagtaatatttgcattatcaatgttc----gtaatacctttttgtccttataatgaa-ggttgtaaaccgtgcag----------------------
 |||||||| |||||||| |||||||| || || || || || ||| ||||||||||||| |||||||| ||||||||||| ||||||||||| ||||||||   |  |||| |   || || ||  ||| || | ||| || |     || ||| |||  | | |||||  |      || ||   |    ||                      
AATTGAAAGCCTTGATCCAGCTTTGCTGCGACCTGGTCGAATTGACAGGAAGATTGAATTTCCTCTCCCTGATATTAAAACAAGAAGACGCATTTTCCAGgta--ggcacattttgtgaaagcaa-gttttcagtttcactgcttcactgttatatcttaatatgcttattctacttaattatatgactaaaaggtcttatacttctgaaatttag

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA13G19280.1 (Glycine max), 5'ss of exon 4

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgt-gctgtaac--atctgtagacagtaatatttgcattatcaatgttcgtaatacctttttgtccttata-atgaaggttgtaaaccgtgcag------------
 ||||||||||||||||| |||||||| || || || || || ||| ||||||| ||||| ||||| || ||||| ||||| || ||||||||||||||||| |   | ||  || |   || || ||||    |||      |||| |  | | |||  || |||  |  ||    ||| |       |               
AATTGAAAGTCTTGATCCAGCTTTGCTACGACCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTCCAGgtaggcatgactaattttgtgaaagcaatacacccat-----gtgtttgggaaagcttgatggcctggtccatttgtgttctttctttagttttgtttttgtttt

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgt-gctgtaac--atctgtagacagtaatatttgcattatcaatgttcgtaatacctttttgtccttat--aatgaaggttgtaaaccgtgcag--------
 ||||||||||||||||| |||||||| ||||| || || || ||| ||||||| ||||| ||||| || ||||| ||||| || ||||||||||| ||||| |   | ||  || |   || || ||||     |  ||   |||| |  | | |||  || |||  |  | |   | |  |      |            
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccat--gtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA19G35510.1 (Glycine max), 5'ss of exon 4

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgt-gctgtaaca---tctgtagacagtaatatttgcatt--atcaatgt-tcgtaata--cctttttgtccttataatg---------aaggttgtaaaccgtgcag------
 |||||||| |||||||| ||  |||| || || || || || ||| ||||||||||||| |||||||| ||||| ||||| ||||||||||| |||||||| |   | ||    |||||  | |    | ||||  ||  |   |  | || |||||  ||| ||   | |  | ||          |||||  || ||  |  |       
AATTGAAAGCCTTGATCCAGCCCTGCTGCGACCTGGTCGAATTGACAGGAAGATTGAATTTCCTCTCCCTGATATCAAAACAAGAAGACGCATTTTCCAGgtcggaatgactagttctgtgaaaacatgtttttggttttcactgacatatcttaatattcctattctacttagttatatctcactaaaaggtcttatacttttgatatttag

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 4

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaacatctgtagacagtaatatttgcattatcaatgttcgtaatacctttttgtccttataatgaaggtt--gtaaaccgtgcag
 || || |||||||| || ||  ||||||| || || || || ||  |||| || || ||||||||||||||||| ||||| |||||||| |||||||||||  | ||  ||          |   |  |  || |    |||||| ||     || |    | |   ||  ||||  ||  |      ||
AATCGAGAGTCTTGACCCAGCACTGCTTCGACCTGGACGGATTGATAGGAAAATCGAGTTCCCTCTCCCAGATATCAAAACAAGAAGACGTATCTTCCAGgtaatatataattctactgagatggcaaatcaatgact--tgttcgaaactttcttgttcattgaggttgtgggttctgtttataaaatag

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 4

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac-----atctgtagacagtaatatttgcattatcaatgttc--gtaatacctttttgtccttataatgaaggttgtaaaccgtgcag
 || || |||||||| || ||  | ||| | |||||||| || ||| |||| || ||||||||||| |||||||| ||||| |||||||| ||||||||||| |   |||     |||  ||     |  |  ||   || | ||| |||  | || | ||  | |   ||  | || | |   | |   |     
GATCGAGAGTCTTGACCCGGCACTTCTTAGACCAGGCCGGATCGACAGGAAAATCGAATTCCCTCTTCCAGATATCAAAACAAGAAGACGTATCTTCCAGgttccacaactggtgatccttaagttttctttctttttttgtgaattttctagaaagatctgatcggtttttaattgcatgccattattag-----

upper sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 5'ss of exon 4

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaacatctgtagacagtaatatttgcattatcaatgttcgtaatacctttttgtccttataatgaaggttgtaaaccgtgcag-----------------------------------------
 ||||||||| | ||||| |||||||||||||| || || |||||  ||||||||||||||||||| || || |||||||| ||||||||||| |||||||| |       | |  |||   |   | |   ||  ||| | |   |    ||   || |  | | ||   |      |||||  ||                                           
AATTGAAAGTTTGGATCCAGCTTTGCTTCGGCCTGGTCGAATAGATAGGAAGATTGAATTCCCTCTTCCTGACATTAAAACAAGAAGACGCATTTTCCAGgtacatgtgtgttta-agattatgcaaatgcaatattcactatattttcatccgacttcttgtgacaactgaatcaccaaacctggcttgattactattactaagcaaatctcatttatttaaattgcag

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|6194887|gb|AW146991.1|AW146991

EST:     ATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: ATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|113702544|gb|EE680048.1|EE680048

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|211247442|gb|FL282636.1|FL282636

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|88753157|gb|DY537298.1|DY537298

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|166701423|gb|EG166079.1|EG166079

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAAATGACATTAGC
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAA-TGACATTAGC

EST: gi|62550417|gb|DN830837.1|DN830837

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|166633409|gb|EG174486.1|EG174486

EST:     GATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCAATCTTCCAG                         ATTCACACATCAAAAATGACATTAG
genomic: GATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCA-TCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAG

EST: gi|116828199|gb|EC855484.1|EC855484

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|91054539|gb|EB164957.1|EB164957

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|14203652|gb|BG837329.1|BG837329

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|32937106|gb|CF041925.1|CF041925

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

EST: gi|211285728|gb|FL480875.1|FL480875

EST:     AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAG                         ATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT
genomic: AGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTT

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: 330

CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgtgctgtaac ... aaccgtgcagATTCACACATCAAAAATGACATTAGCTGACGATGTGAACTTGGAAGAGTTTGTTATGACCAAAGATGAGTTCTCGGGCGCTGATATTAAGGCCATCTGCA

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 302

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 290