ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtacagccagcattaactttaaaatttaggtagcaatatttacgatgttgatatgcatttccacatcatgttaaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG

Basic information

species	Zea mays
transcript	GRMZM2G097421_T01
intron #	6
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G097421_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g35570.1 (Oryza sativa), 3'ss of exon 6

gtacagccagcattaactttaaaatttaggtagcaatatttacgatgttgatatgcatttccacatcatgttaaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG
||||| || | | | | |||    |||||||| ||  | |   |||||| || ||||| | ||||||||| |||||||||||||| |||| ||||||||||| |||||||| || |||||||| ||||||||||||||||||||||| ||||| |||||||||||||||||||||
gtaca-cctgtagtcattttg---tttaggtaacagaaatattgatgttaatttgcatgttcacatcatgataaactttcagGCACTGGACACTTTCAATACCGCAGTTGTGTCCCCCATCTATTATGCGATGTTTACATCCCTCACTATTTTAGCAAGTGCCATAATGTTCAAG

upper sequence: GRMZM2G097421_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA05G33020.1 (Glycine max), 3'ss of exon 6

-------------gtacagccagcattaact-ttaaaatttaggtagcaat--atttacgatgttgatatgcatttccac--atcatgttaaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG
              | | |      |||  | | | |||||   |   | |   | | | ||  ||   |  ||    ||  |   |   |   || ||||||||||||| ||| || || |||||||||||||| ||||| |||||  |||| || ||  | ||||| ||||| || || || ||||| |||
atttactggagtgtttctgttccttttagttgtcataattttcttgttatttagtcttcaatcctggcttctatggtgaccaactgttccatggttgcagGCATTGGATAATTTTAACACAGCAGTTGTTTCTCCAATCTATTATGCATTGTTCACTTCTTTTACAATATTGGCCAGCGCAATCATGTTTAAG

upper sequence: GRMZM2G097421_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G16670.1 (Glycine max), 3'ss of exon 6

--------------------gtacagccagcattaactttaaaatttaggtagcaatatttacgatgttgatatgcatttccacatcatgttaaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG
                    |     |     | | | ||    | |  || |   |    ||   | |  | ||| |  |||  || ||    |||  ||||||||||||||||| || || |||||||||||||| |||||||||||  |||| |||||  | ||||| || || ||||| || ||||| |||
tacatgattgttgcttccttgcctttcagttgtcatcatttgcttgttagttgatcttcaaactgggcttctgtgc-tgaccaactcttgcatgactg-cagGCATTGGATACTTTTAACACAGCAGTTGTTTCTCCGATCTACTATGCCTTGTTCACATCTTTTACAATATTAGCTAGTGCAATCATGTTTAAG

upper sequence: GRMZM2G097421_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv07s0031g02960.t01 (Vitis vinifera), 3'ss of exon 6

------------gtacagccagcattaactttaaaatttaggtagcaata--tttac-gatgttgatatgcatttc----cacatcatgttaaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG
                   |||  |||  |||||  ||||  ||   |||  || ||  ||||  | ||  || |     |  |   || |    || |||||| ||||||||||||| || || |||||||||||||||||||||||  |||| |||||  | || ||||| || ||||  || ||||| |||
ttatcacttttttcgttttcagtcttacatttaat-tttacctaattatagattgactaatgtgtagatttatctgatggctgaatttggtttgtttccagGCACTGGATACTTTCAACACAGCCGTTGTTTCTCCCATCTACTATGCCTTGTTCACATCATTTACTATTTTAGCCAGTGTGATTATGTTTAAG

upper sequence: GRMZM2G097421_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv18s0086g00190.t01 (Vitis vinifera), 3'ss of exon 6

---------------gtacagccagcattaactttaaaatttaggtagcaatatttacgatgttgatatgcatttccacatcatgttaaact---ttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG
                |           ||  ||   | | |    ||   | |||  ||     || |  |||      | |  ||    |   | ||||| |||||||| ||||| || || ||||||||||| || || |||||  |||| |||||  ||||||||||||| ||||||||||||||||||
atgtgaacattttcactttcatttttgctattttcttagtctgccaaggtctgttttagaaaacaatctagattaatgactgagtttggcttgtctccagGCTTTGGATACATTCAACACAGCGGTTGTTTCTCCAATATATTATGCTCTGTTCACATCATTCACAATTTTGGCCAGTGCCATAATGTTCAAG

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|78118379|gb|DV536765.1|DV536765

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTNCA-TACTGCAGTTGTTTCTCCCATCTACTATGCGAT
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTT-CAATACTGCAGTTGTTTCTCCCATCTACTATGCGAT

EST: gi|149012854|gb|EE042696.2|EE042696

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCC
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCC

EST: gi|74236901|gb|DT644815.1|DT644815

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTTCA-TACTGCAGTTGTTTCTCCCATCTACTATGC
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTT-CAATACTGCAGTTGTTTCTCCCATCTACTATGC

EST: gi|78118378|gb|DV536764.1|DV536764

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|149101364|gb|EE187481.2|EE187481

EST:     AACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTTAC-TGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTTGTT-CTCCCATCTACTATGCGAT
genomic: AACTGTTTCAGCTACATGCATAATTATTCAGTTAATTT-ACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTT-GTTTCTCCCATCTACTATGCGAT

EST: gi|148951157|gb|EC896836.2|EC896836

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTTATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|40334623|gb|CK368693.1|CK368693

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|60349889|gb|DN216862.1|DN216862

EST:     ACATGCATAATTATTCAGTTAATTTACNTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: ACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|94478877|gb|EB707835.1|EB707835

EST:     CAACTGTCTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATGGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTGCTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|78123628|gb|DV542012.1|DV542012

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|74244190|gb|DT652104.1|DT652104

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|71416856|gb|DR803834.1|DR803834

EST:     AACTGTTTCAGCTACATGCATAATTATTTCAGT-AATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGGTGTTTCTCCCATCTACTATGCGATG
genomic: AACTGTTTCAGCTACATGCATAATTATT-CAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|78079715|gb|DV508127.1|DV508127

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|91050129|gb|EB160547.1|EB160547

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|149005297|gb|EE039846.2|EE039846

EST:     ACTGTTTCAGCTACATGCATAATAATTCAGTTAATTTA-CTGGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGAT
genomic: ACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCT-GAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGAT

EST: gi|148948891|gb|EC894305.2|EC894305

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTTCA-TACTGCCAGT-GTTTCTCCCATCTACTATGCGA
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTT-CAATACTGC-AGTTGTTTCTCCCATCTACTATGCGA

EST: gi|71416855|gb|DR803833.1|DR803833

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

EST: gi|71446399|gb|DR827449.1|DR827449

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATG

EST: gi|76012865|gb|DT940035.1|DT940035

EST:     CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAG

EST: gi|149070088|gb|EE158488.2|EE158488

EST:     CAACTGTTTCAGCTACAGGCATAATTATTCAGTTAATTTACCTGAACAAG                         GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG
genomic: CAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATG

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: 47 (upstream exon), 48 (downstream exon)
Score: 98

TACAATTGAGGGCATAAACCAGGCTGGCTATTTCCAGACTTGGCTGTTTGCAACTGTTTCAGCTACATGCATAATTATTCAGTTAATTTACCTGAACAAGgtacagccag ... aaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 201

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 174

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 162

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

aggtagcaatatttacgatgttgatatgcatttccacatcatgttaaactttcagGCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG