ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGATGAAGATGTCGATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttattcaccttttattttatcagacaatatgacattccattttgtgacgaggatctacaacaattgtgaagaagcagtccttcaacagcgtgtttcaatcatatactattgtttttttcacatgtactcatttgaaacag

Basic information

species	Zea mays
transcript	GRMZM2G058910_T01
intron #	13
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os03g14690.1 (Oryza sativa), 5'ss of exon 13

AGATGAAGATGTCGATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttattcaccttttatt--ttatcagacaatatgacattccattttgtgacgaggatctacaacaattgtgaagaagcagtccttcaacagcgtgtttcaatcatatactattgtttttttcacatgtactcatttgaaacag
||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||| ||||| ||||| |||||||||||| |||||||||||||||||||||   ||  | ||   |  |     || | ||| || | |||| || |||    ||  || |    ||  |  |  |  | |  | |  || ||   | | |                                     
AGATGAAGATGTCAATTCTTCTTGGAGTTGCACAAATGAACCTTGGAATTGTGATTAGTTACTTTAATGCGAAATTCTTCAGGAACAGTGTTAATGTGTGgtaagtttatt-gtctcgtgttgaatgcccttttatgtaacactctactttgagatgaga--ttatgacca----gattattctctattgctgctgtatgcttttgtaacag------------------------------------

upper sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA11G12120.1 (Glycine max), 5'ss of exon 13

AGATGAAGATGTCGATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttattcaccttttattttatcagacaatatgacattccattttgtgacgaggatctacaacaattgtgaagaagcagtcctt--caacagcgtgtttc---aatca-----tatactattgtttttttcacatgtactcatttgaaacag---------------------------------------------
| ||||| ||||| ||||||||||||||||| |||||||||||||| |||||||| || || |||||||| | ||| || || |||||  | ||||||||||||||| ||      | |   ||||   | ||| | ||  || |   |   |    ||  || |      | |  |  | |||  |   ||      ||  ||   |||||      | |  | || || ||||      | | |  | | | |                                              
AAATGAAAATGTCAATTCTTCTTGGAGTTGCTCAAATGAACCTTGGAATTGTGATGAGCTATTTCAATGCCATATTCTTTAGAAACAGCGTAAATGTGTGgtaagttaatcggtaatat---ttatggtaaaatcttactctcgaggatagaaaatagaaatagatggggggggggggggtagttttgtgcagttatttgcatctgcaatcaacaatcaaatcactgattctttctatcagaataaacttacatactaattcaacattaatgtacttttttattcaatgtttccctctcag

upper sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA12G04330.1 (Glycine max), 5'ss of exon 13

AGATGAAGATGTCGATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttattcaccttttattttatcagacaatatgacattccattttgtgacgaggatctacaacaattgtgaagaagcagtccttcaacagcgtgtttcaatcatatactattgtttttttcacatgtactcatttgaaacag
| ||||| ||||| ||||||||||||||||| |||||||||||||| |||||||| || || |||||||| | ||| || || || ||  | ||||||||||||||| ||  |  |||           |   |||||   |  |   |   | | ||  |       |  |   | ||  |     |    ||  |  | || | || |                                    
AAATGAAAATGTCTATTCTTCTTGGAGTTGCTCAAATGAACCTTGGAATTGTGATGAGCTATTTCAATGCCATATTCTTTAGAAATAGCGTAAATGTGTGgtaagttaatcgatattt-----------atggtatgaggatagaaaatagaagggggggcgggggggaggggagaaaaaaaactactttgtagttttgtgcagttatttg-----------------------------------

upper sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 13
lower sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13

AGATGAAGATGTCGATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttattcaccttttattttatcagacaatatgacattccattttgtgacgaggatctacaacaattgtgaagaagcagtccttcaacagcgtgtttcaatcatatactattgtttttttcacatgtactcatttgaaacag
||||||| ||||| |||||| |||||||||||||||||||||| || ||  | || || | ||| ||||||||||| ||||  |    | | ||  | |||| ||  ||||||  |||       |   |  |  |     |||   || |  | |  |||| |     |  |||     ||    | ||                                                        
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgag--tattcaattttctgcccttgtcattacgtacttctcccagttctt-caattatctgcccttgtc-tgatctcacatggttccag-------------------------------------------------------

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|71768892|gb|DR966829.1|DR966829

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|60397735|gb|DN230551.1|DN230551

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|60396043|gb|DN228913.1|DN228913

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|22935878|gb|BU572153.1|BU572153

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|60351631|gb|DN218604.1|DN218604

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|71441347|gb|DR822397.1|DR822397

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|60352256|gb|DN219229.1|DN219229

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|87157808|gb|DY402597.1|DY402597

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|32919460|gb|CF024272.1|CF024272

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|26559615|gb|CA831850.1|CA831850

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|211366581|gb|FK956890.1|FK956890

EST:     TTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCARCTGATCTTCTTGAACATCTTATTTGGCTACCT
genomic: TTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|67016167|gb|CO444916.1|CO444916

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|67013974|gb|CO442723.1|CO442723

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

EST: gi|30031855|gb|CB833706.1|CB833706

EST:     GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTG                         GTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT
genomic: GTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCT

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), 47 (downstream exon)
Score: 193

AGATGAAGATGTCGATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttat ... tttgaaacagGTACCAGTTCATTCCCCAGCTGATCTTCTTGAACAGCTTATTTGGCTACCTGTCCTTGCTCATTATTATTAAGTGGTGCACGGGGTCGAAAGCAGATCTA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 356

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 247