ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcagaagcatctatccttttttacttaccaaattatttctatcaattcttgttttgatggttgtactaaggtcttacactcttacttgataagt...

Basic information

species	Zea mays
transcript	GRMZM2G147721_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G147721_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g50760.1 (Oryza sativa), 5'ss of exon 3

CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcagaagcatctatccttttttacttaccaaattatttctatcaattcttgttttgatggttgtactaaggtcttacactcttacttgataagt----
|||||||||||||||||||||||||||||||||||||||||||| || ||||| |||||||| |||||||||||||| ||||| ||||| ||      | ||   ||||||| | |   | ||| || ||| |||  ||| || |||| ||   ||||  ||  |  ||  |    | |  | | |     
CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCTCAAACACGACGTGGCCAGCCTTGCTGGTTTAGGGTGCCTCAGgtcagtagcagaacaatcatcctttgt-atgcatcaatttttttatatatattgttttttt-ataactgtatgaa--ttataatccagaattgcacaggcattg

upper sequence: GRMZM2G147721_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G01820.3 (Glycine max), 5'ss of exon 4

CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcagaagcatctatccttttttacttaccaaattatttctatcaattcttgttttgatggttgtactaaggtcttacactcttacttgataagt
||||| || ||||||||||| |||||||| |||||||| ||||| || ||||| || ||||| || |||||||||||||||||  ||||| |   | ||  |   ||      ||          |||| |  ||    |  ||||  |||    ||| | |  ||| |      ||     ||   
CTTCAGGCATATTTTCTTGTTCTTGATGACATTATGGATAACTCTCACACACGCCGCGGCCAGCCATGCTGGTTTAGAGTGCCCAAGgtttgtagaaaaataaacatgtgccattgt-------gttatcttaat--gctgctgttgggataaa-gtaattatctctaattactgtatggtgtag--

upper sequence: GRMZM2G147721_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA15G12780.1 (Glycine max), 5'ss of exon 4

CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcagaagcatctatccttttttacttaccaaattatttctatcaattcttgttttgatggttgtactaaggtcttacactcttacttgataagt
||||| || ||||||||||| |||||||| |||||||| ||||| || ||||| ||||| || || |||||||||||||||||  ||||| | |   ||| |  || | | |   | ||      |||| | |||    |  |||| ||||    | | | |  |||        ||     ||   
CTTCAGGCATATTTTCTTGTTCTTGATGACATTATGGATAACTCTCACACACGCCGTGGTCAGCCATGCTGGTTTAGAGTGCCCAAGgtttg-tagaaagaa--taacatgtgccatttt----gttatctttat--gctactgttgtgataaa-gcaattatctctagttacggtatggtgtag--

upper sequence: GRMZM2G147721_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4

CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcagaagcatctatccttttttacttaccaaattatttctatcaattcttgttttgatggttgtactaaggtcttacactcttacttgataagt
|| ||||||||||| ||||||||||||||||||||||| |||||    || || ||||| |||||||||||||| ||||| || |||||        |||  |  ||  |||||  |   |   | |        | |||||       |  |||  |                             
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgt-------aaagttttcatattttttgtcacgctgcagtccactagactattctaacac--aatgttacag----------------------------

upper sequence: GRMZM2G147721_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv19s0015g01010.t01 (Vitis vinifera), 5'ss of exon 4

CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgt-tagatcagaagcatctatccttttttacttacca-aattatttctatcaattcttgttttgatg----gttgtactaaggtcttacactcttacttgataagt
|||||||| ||||| ||||||||||||||||||||||| ||||| || ||||| || || |||||||||||||| || || ||  ||||  |   |   ||   |  |  |||| |    |    ||  || | |  |||||     ||||||     |  |||||||  |  |    | |  |||       
CTTCAAGCATATTTCCTTGTGCTTGATGATATTATGGATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcctatagtgaccctttttttctttacagtgcaagcatgtttg-caattgccactttgataaagtgaagtactaactttcttagatttgtcttag-----

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|148972761|gb|EE023734.2|EE023734

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|149102315|gb|EE188183.2|EE188183

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|149081093|gb|EE170194.2|EE170194

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|148986685|gb|EE030467.2|EE030467

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|211537181|gb|FL316595.1|FL316595

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|71437045|gb|DR818095.1|DR818095

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|211507953|gb|FL346110.1|FL346110

EST:     CAACTCCCAGACACGGCGTGGNCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTNAATGATGGGATTATCCTTTCGCA-TCATATTTC
genomic: CAACTCCCAGACACGGCGTGG-CCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTT-CGCAATCATATTTC

EST: gi|211278408|gb|FL366607.1|FL366607

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGC-ACAG                         GTTGGCCTCATTGCTGTAA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAA

EST: gi|211222998|gb|FL350874.1|FL350874

EST:     CAACTCCCAGACACGGCGTGGCCAACCTTGCTGGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCA
genomic: CAACTCCCAGACACGGCGTGGCCAACCTTGCTGG-TTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCA

EST: gi|148942982|gb|EC888030.2|EC888030

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|148943253|gb|EC888314.2|EC888314

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

EST: gi|74235474|gb|DT643388.1|DT643388

EST:     ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAG                         GTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA
genomic: ACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCA

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: 38 (upstream exon), 49 (downstream exon)
Score: 30

CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcag ... tttgcaatagGTTGGCCTCATTGCTGTAAATGATGGGATTATCCTTCGCAATCATATTTCACGAATCCTTCAACGCCACTTCAAGGGGAAGCCATATTATGTTGATGTAA

Block sizes: 33 (upstream exon), 49 (downstream exon)
Score: 23

Block sizes: 33 (upstream exon), 45 (downstream exon)
Score: 5