ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCTTACGATTTCACTCGAATATTGAGCTCCTTTTATTTCAAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattgtgtcagaactagtacacctatactcatgttccattttccatttcagaaacttcacactgatgaccaatttatacatgtttttag

Basic information

species	Zea mays
transcript	GRMZM2G016184_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G016184_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g46410.1 (Oryza sativa), 5'ss of exon 3

GCTTACGATTTCACTCGAATATTGAGCTCCTTTTATTTCAAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattgtgtcagaactagtacacctatactcatgttcc----attttccatttcagaaacttcacactgatgaccaatttatacatgtttttag
|| || ||| ||||  |  || ||||||| ||||| |||||||| ||  ||| ||||||||| ||||| ||  | ||||||||||| ||||||| ||||    ||| ||||||||  |||       | ||    ||||| | ||||  ||| |||| | | |  || | ||   || | |||| ||
GCATATGATCTCACAAGGGTACTGAGCTCATTTTACTTCAAGGGATATTCTTCACTGACAAAGATACAACGTGTTGAATGGAACAACAGgtcagcattgc--tagagctagtacatatattgctccctccctgatatttttcttttcgtaaatttcatagtaacaacaagtt---acct-ttttcag

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|32832303|gb|CD971981.1|CD971981

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|211179443|gb|FL364371.1|FL364371

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|211370346|gb|FL342982.1|FL342982

EST:     AGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAAACAATAG                         GGGTATGTCCAGCGCTCATGC
genomic: AGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAA-CAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGC

EST: gi|211430478|gb|FL350076.1|FL350076

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|44681921|gb|CK786969.1|CK786969

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|76293603|gb|DV033171.1|DV033171

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|211134109|gb|FL315814.1|FL315814

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|148947020|gb|EC892317.2|EC892317

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|76286797|gb|DV026365.1|DV026365

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|211200884|gb|FL351309.1|FL351309

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|148947019|gb|EC892316.2|EC892316

EST:     AGGGGTTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: A-GGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|50322746|gb|CO517872.1|CO517872

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|50338098|gb|CO533224.1|CO533224

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|148953653|gb|EC899012.2|EC899012

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|67017667|gb|CO446416.1|CO446416

EST:     AAGGGCTACACTTTACTGACAAAAA-ACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|211176856|gb|FL323774.1|FL323774

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

EST: gi|76280960|gb|DV020528.1|DV020528

EST:     AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAG                         GGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT
genomic: AAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCT

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), 48 (downstream exon)
Score: 212

GCTTACGATTTCACTCGAATATTGAGCTCCTTTTATTTCAAGGGCTACACTTTACTGACAAAAATACAGCGCATCGAATGGAACAATAGgtcagtattg ... atgtttttagGGGTATGTCCAGCGCTCATGCAATTTTTATCACGGCTGTATCATTATATCTTGTCATGTCAACTGATCTTTTCTCCGACCGCGTCAAGGGACCTATTACA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 143

Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 61