ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttcaaatatatcctgtttcagatgtacgcttttttcagaagccacccttaacgcatcgtgaagttttaaaactacacgaaatgatacttgagag...

Basic information

species	Zea mays
transcript	GRMZM2G060886_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttcaaatatatcctgtttcagatgtacgcttttttcagaagccacccttaacgcatcgtgaagttttaaaactacacgaaatgatacttgagag
 |||||||| ||||||||||| ||||||||||| |  |||||||||||||||||||| ||||| ||||| ||||| ||||||||||||||||||||||| ||| |||| | | ||    |    |  || |     ||||       ||    |||  ||         |   | |  |  |  |  |    ||||| | 
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacacattatttacaacccatttggatgttttgtttcttcctggtttattgctctacagcctacaacagtttaaatattttcagcttgaaat

upper sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
lower sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttcaaatatatcctgtttcagatgtacgcttttttcagaagccacccttaacgcatcgtgaagttttaaaactacacgaaatgatacttgagag
 ||||| || |||||||| |||||||||||||| || ||    |||||||| ||  | ||||||||||| ||||||||||| ||||| || ||||| || |||     ||   || || |  |||   | |  |   |||  |   |  |    | || |||  |    |||    |                       
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatg-atctcatagttctc-tcttggaagtttataattgtgaatgcttactcattctctcttttcttcag----------------------

upper sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
lower sequence: AT1G48600.2 (Arabidopsis thaliana), 5'ss of exon 8

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttcaaatatatcctgtttcagatgtacgctttt-ttcagaagccacccttaacgcatcgtgaagttttaaaactacacgaaatgatacttgagag
 |||||||| ||||||||||| ||||||||||| || || ||||| || || ||  | ||||||||||| ||||||||||| ||||| || ||||| || ||||    ||||  ||  |  | |   || ||    ||| |||     |        | |  |  ||    |      || |||    |    ||    ||
ATGCTCAGTCGAGTTTGAAGTCGCTGATTGCACCACCAAAACATATCCCGATAATTCCTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtataag-caaagctactcaatatattatatatatatttgttctttcactcttgaagatggtttttggtaatcatcctctgcaccctttatctctgttcag

upper sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv17s0000g02430.t01 (Vitis vinifera), 5'ss of exon 8

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttcaaatatatcctgtttcagatgtacgcttttttcagaagccacccttaacgcatcgtgaagttttaaaactaca-cgaaatgatacttgagag-
 |||||||| || || || || ||||| ||||| | |||  |||| || ||||||||||||||||| || ||||||||||| || || |||||||| || |||   | |   | | |  | | |  ||  |  |  |  ||  | | |     | |    ||  |   |  || | | |  |     ||     | || |  
GTGCTCAGTTGAATTCGAGGTAGCTGACTGCACCAAGAAATCATATCCTGACAACACATTTGATGTGATCTACAGCCGTGACACCATTCTTCACATTCAAgtaatatacctttcttttttctgtgggacttttgaatggttatgcatctgt--taattttattattctgcctttatattctagttccatttggttcgaaaag

upper sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv01s0011g05200.t01 (Vitis vinifera), 5'ss of exon 8

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgta-tgtttcaaatatatcctgtttcagatgtacgcttttttcagaagccacccttaacg-catcgtgaagttttaaaactacacgaa-atgatacttgagag------------------------------------------------------------------------
 |||   || || || || |||||||||||||| | ||| || || || || || ||||||||||| || |||||||||||||| || ||||||||||| ||| |  ||   | ||    ||   | | |  | |  |  |  | || | || || || |   |  ||||  |   |   | |||    |  |||   || |                                                                         
ATGCCTGGTCGAATTCGAGGTTGCTGATTGCACCAAGAAAACGTATCCTGATAATACATTTGATGTGATCTACAGCCGTGATACCATTCTTCACATACAGgtagtcattttcacatcctttgcagcggtttcatgaatcatg-ataaacaactctgaaggatcttttgaatctccgaccatgcacatccaacatagccgaaattttttattattaattatggtttttccttttcttcatataccgccatctgatggtagctgtggaattttttag

upper sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv01s0011g05220.t01 (Vitis vinifera), 5'ss of exon 7

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgta--tgtttcaaata---tatcctg-tttca-gatgtacgcttttttcagaagccacccttaacgcatcgtgaagttttaaaactacacgaaatgatacttgagag
| |||  || || ||||| ||||| |||||||| | ||| ||||| || || |  ||||||||||| || ||||| ||||| ||||| ||||||||||| |||    || | | |    |||||   ||||| |||  | ||| || |  |||  || |  ||| |  || ||    |||     | |||    || |  ||     
TCGCTTGGTTGAATTTGAGGTTGCAGATTGCACCAAGAAAACATATCCTGATAGTACATTTGATGTGATCTACAGTCGTGACACTATTCTTCACATACAAgtaatcattcctatttctttatccgaatttcacgattaaggctgttctgtgaa--caactataaagggtcttgttaattttg---tgcacattctgttcttttct--

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|32792428|gb|CD944664.1|CD944664

EST:     ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACAT                         GACAAACCCTCTTTGTTCAAAAGTTTCTTCAAGTGGCTGAAGCCTGGGGGC
genomic: ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttca ... tgttttgcagGACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGC

EST: gi|37395918|gb|CF635245.1|CF635245

EST:     ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACAT                         GACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGC
genomic: ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttca ... tgttttgcagGACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGC

EST: gi|67022924|gb|CO451673.1|CO451673

EST:     ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACAT                         GACAAACCCTCTTTGTTCAAAAGTTTCTTCAAGTGGCTGAAGCCTGNGGGC
genomic: ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttca ... tgttttgcagGACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGC

EST: gi|116824377|gb|EC867991.1|EC867991

EST:     ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACAT                         GACAAACCCTCTTTGTTCAAAAGTTTCTTCAACTGGCTGAAGCCTGGGGGC
genomic: ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttca ... tgttttgcagGACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGC

EST: gi|32826760|gb|CD966438.1|CD966438

EST:     ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACAT                         GACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGC
genomic: ACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttca ... tgttttgcagGACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGC

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), 48 (downstream exon)
Score: 113

TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttca ... tgttttgcagGACAAACCCTCTTTGTTCAAAAGTTTTTTCAAGTGGCTGAAGCCTGGGGGCAAGGTCCTTATCAGTGACTACTGCAGGAGTCCTGGGAAACCATCAGAGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 119

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 101