ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag

Basic information

species	Zea mays
transcript	GRMZM2G368908_T02
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os04g56646.1 (Oryza sativa), 5'ss of exon 9

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag
              | ||||||||||| ||||||||||| |||||  |||||||||| |||||||||||||| || || || || |||||||| || |||||   |||||| | |||  |       || ||  |       | |||       |    ||  ||  |  ||||  |||| |     ||   |    | | |  |||                                             
--------------TTAAAACAAACGATATGATGTTGGTCATATACTTGTCTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtttctgtcttat-------ctattgaatatagaagatgc-------gggagttaggagatacttgt--catttattgtaagacttccttttatttgattccag-----------------------------------------

upper sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 9

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag
             ||||||||||| || |||||| |||||||||| || || ||||| ||  | ||||| ||||| || ||||| ||||| ||||| |||||  | |    |   ||        |  || | ||     ||| ||  | | |||||  |||||   |  || | | |||           ||||||  |  || |||||   | ||  || |                             
-------------GTGAAAACAAATGATATGATGCTGGTAATATACCTCTCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatacactccccta-----aattttgatgca--tgtttgctgatttctttgta--ttttggatttgttatcatatt-----------atgaaaataa-cagttttg---taaggttgga-----------------------------

upper sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgttt-cagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag
              |||||||||| ||||||||| | || || ||||| || || || || |||||||| |||||||| ||||| ||||||||||| |||||| | | |||   |     |||    | |    || |    || | | |    |  |  || |||||    ||||     |                                                                       
--------------TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactctctctcacggcacacaataatgtgattc-tgaactaaatcttgtgatgatgctgtgtttcag-----------------------------------------------------------------------

upper sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
lower sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag
              | |||||||| ||||||||| | ||||| || || ||||| || ||||| ||||| || || || |||| |||||||||||| |||||  | |      |||  ||     |     |  |||   |   ||  |    | |    | ||     |||||    || | |  | |  |||  ||   |||                                                
--------------TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagacc-atcatctctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtgg--atgctatgtttcag-----------------------------------------------

upper sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
lower sequence: Vv08s0007g01980.t01 (Vitis vinifera), 5'ss of exon 9

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag
              |||||||||| || ||||||||||| || ||||| || ||||| ||||| ||||| || || || ||||| |||||||| || |||||        | |  |  |||||  |  ||  | |||   ||    ||| |    ||||  |||  | ||| || ||  |||     ||      | | | |  |   || |  ||                                    
--------------TGAAAACAAATGATATGATGTTGGTTATTTATCTTTCATCTCTCATCCGAAGTGTTATAGCTCTCCACAACTTGATCAATAACAAGgtaa------tatgccctcttctcata-tgaatgagtttttt----catgctaactagacattg--gccttggttac-ctgattttaagctggatattgagttgaa--tgttacga------------------------------------

upper sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S197_115V6.1 (Physcomitrella patens), 5'ss of exon 9

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtccct--tggtgcatcccttg-tagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag
              ||||||||||||||||||||||||| || || |||||||| || || |||||||| |||||  | |||||  | || || || |||||      ||||| | ||   |||    | | | |||   |  || || | |   || || |   | ||    || |  | |  | ||  ||       |||||||                                                 
--------------TGAAAACAAACGACATGATGTTGGTGATTTACCTGTCTTCCCTTATTCGGAGTGTTATTGCTTTACACAACCTCATAAATAACAAGgtataagatttttgt-tgaggctgcccatttctaagtttttaatgatgtagctgatgatatacgctaattctcttttagcgtatatcatcagct-----atcactc-------------------------------------------------

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|32942736|gb|CF047555.1|CF047555

EST:     GATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: GATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|32938917|gb|CF043736.1|CF043736

EST:     CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|26559639|gb|CA831874.1|CA831874

EST:     CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|22819429|gb|BU499519.1|BU499519

EST:     CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|18384914|gb|BM418113.1|BM418113

EST:     ATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: ATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|78089023|gb|DV517416.1|DV517416

EST:     CTTCTCTGATCCGGAGTGTCATTGCGCTTCCCAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCCCCATT
genomic: CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|88755237|gb|DY539378.1|DY539378

EST:     TTTTTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTGGAAACCAGCCGCCATT
genomic: CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|87155995|gb|DY400784.1|DY400784

EST:     CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|78089024|gb|DV517417.1|DV517417

EST:     CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: CTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

EST: gi|161585959|gb|EY955356.1|EY955356

EST:     CGGAGTGTCATTGCCCTTCACAATTTGATCAACAATAAG                         ATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT
genomic: CGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATT

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: 192

TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtt ... gtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATTCCAACTGCTGCCGGTGGAGGGGGAGCTAAATGAGCTTTTGATCACTTAT

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 133

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 208