ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

...gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaaccaactgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT

Basic information

species	Zea mays
transcript	GRMZM2G134582_T01
intron #	7
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g12800.1 (Oryza sativa), 3'ss of exon 7

gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatg-tacgaacca-actgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
  || ||      || |      |||        |||        |||||      || | || |  |||    ||| || | |   |||||||||||  |||||||||||||||||| |||||||| || ||||||||||||||||| |||||||| ||||||||||||||||| ||||| || |||||||||||||||||
--ttagttctctcttctacaccattatttctcatctacaccaacttctgttgagtttgaactgctgtgaattgtactcaagttatcttctcatgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACTACAAATACAATGATGAGAACACCGTGTCCTTCGTGACCATGAACAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g12794.3 (Oryza sativa), 3'ss of exon 6

gtttggtatatctttttggtg--------ttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaaccaactgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
      ||||||| |||| |         || | | | | ||| || || || | |||  | ||| |  || |   |   ||| |||      |||||  ||||  |||||||||||||||||| |||||||| || |||||||||||||| ||||||||||| |||||||| |||||||| ||||| || |||||||||||||||||
-----ttatatctctttgattaccattatttgtcatctgctcccaacttctgttgtgtatgaagttctgtgaattga---actcaacatgtcttctcacttattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTTTGTGACTACAAATACAATGACGAGAACACTGTGTCCTTCGTGACCATGAACAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G09640.1 (Arabidopsis thaliana), 3'ss of exon 7

--gtttggt-atatctttttggtgttttaagcagttcctaagttttg--atctgtcagtagtgcaa-tgtacgaaccaactgaactcaaac---tctcatgt---------attttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
  || |||| |||||||  |       ||   ||||  | || ||||  ||| |  | |  |  |  | |  ||| ||| ||   |  | |   ||| || |         | |  ||| |||||||| ||||| ||||||||||| ||||| || ||||||||||||||||||||||| ||||||||||  ||||| ||||| ||  | ||||||||
gtgtgtggtgatatcttcct------ctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcagGATTCTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACTACAAGTACAACGATGAGAACATGGTGTCATTTGTCACGCTCAACAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7

gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaa-ccaactgaactcaa-actctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
 || |     |  |     || |||| |       || |        | | |  ||| || | ||  || |  | ||   | ||   | |  |  |||  ||| |||||||| ||||| ||||| ||||| ||||| || |||||||||||||| |||||||| ||||||||||  || || ||||| ||  | ||||||||
-ttagaggggtactcactatggtttatgggacatgtatggcccagagtctgaa-agtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S172_22V6.1 (Physcomitrella patens), 3'ss of exon 5

-----------------------gtttggtatatctttttggtgttttaagcagttcctaagttt-tgatctgt-cagtagtgcaatgtacgaaccaactgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
                        |||  | ||     |  || |  ||   ||  || | | || ||     |    |    |   |   |  | ||| |   |  |    |    |||   ||| |||||||| |||| |||  | ||||| |  ||  ||||||||||||| |||||||||||||||||||||  |||  | || ||||||||||| |||||
gtacgtcttctaatgagcatatgatttaatttagagcctcagtctgatactgagcacccatgcttatggagaatgtcttgaccctcggcttgtgctaac-gtggtggacgggttgaatatgccagGATTCTGGGAAATGTTCGATGCTGAGGGTTGGTCATTGTGGTTCTGTGATTACAAGTACAATGATGAGAACCAAGTCACTTTCGTGACCATGAATAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S33_218V6.1 (Physcomitrella patens), 3'ss of exon 6

--gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaaccaactgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
    ||  ||  || || | || |    ||            | | || | || |  ||     |     |   |   || |       |  | | |   ||| |||||||| |||| |||| | || || |||||  ||||||||||||| |||||||||||||| ||||||  |||  | |||||||| ||||| || ||
gcacttttta-gtcattctagtctgcagagtcagagtgtttctctcatgtctcggacgtttggggctgatagtgagctaatttgg-tggttgtatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATTACAAGTACAATGACGAGAACCAAGTAACCTTTGTGACTATGAATAAAGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S71_218V6.1 (Physcomitrella patens), 3'ss of exon 7

-------------------------gtttggtatatctttttggtgtt-ttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaaccaac-----tgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
                          ||||   |||  || |||     || |    ||   |    ||  | |  ||   |     |||   | |  |      ||   |    || |   ||     |||||| ||||| |||| |||  | ||||| |  ||  ||||||||||||| ||||| ||||| |||||||||  |||  | |||||||| |||||||||||
gtaagtttctattaatgaactcatgatttgagttatggttgtggcacaatttaatgatttgcactcattcttttcgcaaatgattggtgtctcatcttatgttcatgtggtggttctgttgagtgcaacagGTTTTTGGGAAATGTTCGATGCTGAGGGTTGGTCATTGTGGTTCTGTGATTACAAATACAACGATGAGAACCAAGTAACATTTGTGACTATGAACAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S132_188V6.1 (Physcomitrella patens), 3'ss of exon 6

-gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaaccaactgaactca--aactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
  ||| | || |    |  |  |||  |  |   |||    |  | ||    | |       ||| |  ||| | | |  |     |   |    | |   |||||||||||| |||| |||  | || || |||||  ||||||||||||| ||||||||||||||||| |||  |||  ||||||||||||||||||||||
gtttttgaatctgcactctggatttcgaaaatgccct---ctacgttcctgaaatttaaatttgtgccgacccattaatattgctgatgattgcttgtgacagGTTTCTGGGAGATGTTCGATGCTGAAGGTTACTCATTGTGGTTCTGTGATTACAAGTACAATGATGAAAACCAAGTTACGTTTGTGACCATGAACAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: EFJ14564 (Selaginella moellendorffii), 3'ss of exon 6

gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaaccaactgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
                                    ||||   | | | ||  | |   |  |   |||    ||||  |  | | |  || | ||  ||| |||||||| ||||| ||||| ||||| ||||||||||||||||| |||||||||||||| ||||||||||| ||| | || ||||| |||||||||||
--------------------------------gtacaagt---ggtgtttccattg---atcgcttgaaaatgctgattttgatcccaaatct-ttgcagGATTCTGGGAGATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

upper sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
lower sequence: EFJ26267 (Selaginella moellendorffii), 3'ss of exon 5

gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaaccaactgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT
                                    ||||   | | | ||  | |   |  |   |||    ||||     |  |||| |   ||  ||| |||||||| ||||| ||||| ||||| ||||||||||||||||| |||||||||||||| ||||||||||| ||| | || ||||| |||||||||||
--------------------------------gtacaagt---ggtgtttccattg---atcgcttgaaaatgctgattctga--tctcttcccttgcagGATTCTGGGACATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

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|37379095|gb|CF626277.1|CF626277

EST:     CGTGAGGTTGCTATAAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: CGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|13150721|gb|BG321043.1|BG321043

EST:     GAGGCTGTACTCTAACACGAAAACCAACTRCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|16377648|gb|BI992035.1|BI992035

EST:     TTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: TTCCGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|4835105|gb|AI670331.1|AI670331

EST:     ACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: ACTTCCGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|28984886|gb|BQ539221.2|BQ539221

EST:     CGTGAGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: CGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|13126413|gb|BG316983.1|BG316983

EST:     GAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|5070037|gb|AI738002.1|AI738002

EST:     AGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: AGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|211244388|gb|FL238839.1|FL238839

EST:     GAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

EST: gi|211541318|gb|FL466515.1|FL466515

EST:     GAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT

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: 45 (upstream exon), 43 (downstream exon)
Score: 295

AACCCTCTTGATTTGCTTCCTCCTAGCAAGATGATTCTTGATGATTGGAAGAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttgc ... tgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT

Block sizes: 45 (upstream exon), 45 (downstream exon)
Score: 302

Block sizes: 45 (upstream exon), 43 (downstream exon)
Score: 190

Block sizes: 45 (upstream exon), 44 (downstream exon)
Score: 249

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tctgtcagtagtgcaatgtacgaaccaactgaactcaaactctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT