ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAGCTGAAGACACGGCCAACAAGCTTGATTTGGATGGACTTGTTGTCATTGGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgctaacgctgtgttttgacctttcaatataaggctgattgtgaatataacattgcgttggttgtttcttttttctgcttattcacaagcaaatcaaaattatgatttcaaattatgaacttgctccatag

Basic information

species	Zea mays
transcript	GRMZM2G059151_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 5

AAGCTGAAGACACGGCCAACAAGCTTGATTTGGATGGACTTGTTGTCATTGGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgctaacgc-tgtg-ttttgacctttcaatataaggctgattgtgaatataacattgcgttggttgtttcttttttctgcttattcacaagcaaatcaaaattatgatttcaaattatgaacttgctccatag
||||||||||||| |  ||||| |||||||||||||| |||||||||||||||||||||||||||||||| || || ||||| |||| ||| ||||| ||||||||  ||||    |||     ||  ||||   |     |   ||| |   ||     |   |         | | | | ||| | || | |   |||                                       
AAGCTGAAGACACTGTAAACAAACTTGATTTGGATGGGCTTGTTGTCATTGGTGGTGATGATTCAAACACAAACGCATGCCTTCTTGCTGAGTACTTCAGgttggcccctaatatgtgtaaccctgttcttttgcttcttaggcaattttctttagttgctgttgacaaagacctttgtgtactgttgatgctctgtcaa---------------------------------------

upper sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 5

AAGCTGAAGACACGGCCAACAAGCTTGATTTGGATGGACTTGTTGTCATTGGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgctaacgctgtgttttgacctttcaatataaggctgattgtgaa---tataacattgcgttggttgtttcttttttctgctta-ttcacaagcaaa-----tcaaaattatgatttcaaattatgaacttgctc-catag-----------------------
|||| ||||| || || || ||||| || |||||||| || ||||| |||||||||||||| |||||||||||||| |||||||||| |||  |||| ||||| |        |   | | ||     |  ||| || | || |||  |||   | |   | ||   || |  |||| | || ||  ||| || |||  |||      |   | |||||| |    |   ||| | || |     |                        
AAGCGGAAGAAACAGCTAAGAAGCTAGACTTGGATGGGCTCGTTGTTATTGGTGGTGATGACTCAAACACCAATGCATGCCTCCTTGCTGAGAACTTCAGgtttgtcttagctgaattttatttctggtgtaatctaggtcttattaggaagcttttgttaatgaaatgatgttttcatgttgctttttaatttacatacaaggacatttccatttatgaatatgtacagtgatcctgtttgtgcaatgctttaatatggattcatgcag

upper sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA09G01050.1 (Glycine max), 5'ss of exon 5

AAGCTGAAGACACGGCCAACAAGCTTGATTTGGATGGACTTGTTGTCATTGGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggct---gctaacgctgtgttttgacct---ttcaatataaggctgattgtgaatataacattgcgttggt-tgtttcttttttctgcttattcacaagcaaatcaaaattatgatttcaaattatgaacttgctccatag------------------------
|||| ||||| || || || ||||| || |||||||| || ||||| |||||||||||||| |||||||||||||| ||||| |||| |||  | || ||||| |     ||| |   |   || ||   |    |   | | |||  | || |||   | | ||   |||    ||||  |||||  |    |||||    ||  || |  |||||| |    ||  ||| | || |   |                          
AAGCGGAAGAAACAGCTAAGAAGCTAGACTTGGATGGGCTCGTTGTTATTGGTGGTGATGACTCAAACACCAATGCGTGCCTTCTTGCTGAGAATTTCAGgtttgtcttagctgaattttatttctggtgtaatctatgtcttaggaagcttttgatattgaaatcatgttttcatgttggtttttaatttacattcaaggacatttccat-ttatgaatatgcatagtgatcctgtttgttcaatgctttaatatggattcatgcag

upper sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 5
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 5'ss of exon 5

AAGCTGAAGACACGGCCAACAAGCTTGATTTGGATGGACTTGTTGTCATTGGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgt-----tggctgctaa---cgctgtgttttgacctttcaatataaggctgattgtgaatataacattgcgttggttgtttcttttttctgcttattcacaagcaaatcaaaattatgatttcaaattatgaacttgctccatag-
|||||||||| || || || |||||||||||||||||  | || || || ||||| |||||||| ||||||||||| ||||| |||| |||| |||| ||||     | || | | |    | | ||||   || | |  || | |||| ||  ||   | |  | |   | |   |||  |     |||  ||| |        | |||  ||| ||| ||   |||||  |||||    ||   
AAGCTGAAGAAACAGCAAAGAAGCTTGATTTGGATGGGTTGGTGGTTATCGGTGGAGATGATTCCAACACCAATGCTTGCCTTCTTGCTGAAAACTTCAGgtaaaccttgcagttgaatctgttatgttgaaacttatttatcttaggc-gaaagtagttgtt-cttgaagatccatgtgaccagaatct--ttaatatttgctgattcagcatt-tgactt---attatctacttgtataattag

upper sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 5

AAGCTGAAGACACGGCCAACAAGCTTGATTTGGATGGACTTGTTGTCATTGGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgctaacgctgtgttttgacctttcaatataagg-ctgattgtgaatataacattgcgttggttgtttcttttttctgcttattcacaagcaaatcaaaattatgatttcaaattatgaacttgctccatag
|||||||||| || ||    ||||||||||||||||| ||  ||||||||||||| ||||| |||||||| ||||| ||||| |||| |||| |||||||||  | | |        | | ||||      |||  |    || |  | |||  | |  | ||| |     || | || || |  || |||                                               
AAGCTGAAGAAACAGCTGTGAAGCTTGATTTGGATGGCCTACTTGTCATTGGTGGAGATGACTCAAACACAAATGCTTGCCTTCTTGCTGAAAACTTTAGgtgtggtacaggtcaattttgttgataggataatcaagtttctaagggggaactttagttggcgatcagctttgccttcttttattttttctttttttct--------------------------------------

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|29167975|gb|CB411235.1|CB411235

EST:     GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAG                         GTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG

EST: gi|211458486|gb|FL255599.1|FL255599

EST:     GGTGGTGATGATTCAA-CACCAATGCCTGCCTCCTTGGTGAATACTTTAG                         GTTCA-GGA-CATTGAAA-CCCGCTGTTAT-GGTTTGCCCAA-GACTATC
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGT-CAAGGAACAT-GAAAACCCG-TGTTATTGGTT-GCCCAAAGACTATC

EST: gi|148953762|gb|EC899129.2|EC899129

EST:     GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAG                         GTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG

EST: gi|211458479|gb|FL255592.1|FL255592

EST:     GTGGTGATGATTCAAACACCAATGCCCTGCCTCCNTGGTGAATACTTTAG                         GTCA-GGAACATGNANNACCCGTGTTATTGGTTGCCCAAA-ACTATTCGAT
genomic: -TGGTGATGATTCAAACACCAATGCC-TGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAA-ACCCGTGTTATTGGTTGCCCAAAGACTAT-CGAT

EST: gi|211458477|gb|FL255590.1|FL255590

EST:     TGGTGATGATTCAAACACCNATGCCTGCCCTC-TTNGTGAAATACTT-AG                         GTCAAGGA-CATGAAAACCCGTGTTATTGGTTGCC-AAAGACTATCGATG
genomic: TGGTGATGATTCAAACACCAATGCCTGCC-TCCTTGGTGAA-TACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATG

EST: gi|211462254|gb|FL324872.1|FL324872

EST:     GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGA-TACTTTAG                         GTCAAGGAACATGAAAACC-GTGNTATTGGTTGCCCAA-GACTATCGATGG
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG

EST: gi|31348678|gb|CD433035.1|CD433035

EST:     GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTCC                         GTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG

EST: gi|211179440|gb|FL364368.1|FL364368

EST:     GGTGGTGATGATTCAAACAC-AATGCCTGCCTCCTTGGTGAATACTTTAG                         GTCAAGGA-CATGAAAACC
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACC

EST: gi|211540563|gb|FL329390.1|FL329390

EST:     GGTGGTGATGATTCAAACACCAATGNCTGCCTCCTTGGTGAATACTTTAN                         GTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG

EST: gi|149103124|gb|EE288493.2|EE288493

EST:     GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAG                         GTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG

EST: gi|31354738|gb|CD439095.1|CD439095

EST:     GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAG                         GTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG
genomic: GGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGG

EST: gi|211334009|gb|FL255568.1|FL255568

EST:     GTGGTGATGATTCAAACACCAATGCCTGCCTTCCT-GGTGAATACTTTAG                         GTCAAG-AACATGAAAACCCGTGTTTTTTGGTTGCCCAAAGACTTTCGATG
genomic: GTGGTGATGATTCAAACACCAATGCCTGCCT-CCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATT-GGTTGCCCAAAGACTATCGATG

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), 49 (downstream exon)
Score: 236

AAGCTGAAGACACGGCCAACAAGCTTGATTTGGATGGACTTGTTGTCATTGGTGGTGATGATTCAAACACCAATGCCTGCCTCCTTGGTGAATACTTTAGgttggctgct ... tgctccatagGTCAAGGAACATGAAAACCCGTGTTATTGGTTGCCCAAAGACTATCGATGGGGATCTGAAATGTAAGGAGGTTCCGACAAGCTTTGGATTTGATACAGCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 298

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 296