ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATCCAGGACCATATGAAATCCAGTATGATGAAGAATGGCTTGCAATAACACGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcatataatatctttatttgttagcagttgagcacatagttcatgctttgaaaaaattgtagccattgctaaatatggagatattcaactttttttacttaaaag

Basic information

species	Zea mays
transcript	GRMZM2G461145_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G461145_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g51540.1 (Oryza sativa), 5'ss of exon 7

ATCCAGGACCATATGAAATCCAGTATGATGAAGAATGGCTTGCAATAACACGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcatataatatctttatttgttagcagttgagcacatagttcatgctttgaaaaaattgtagccattgc--taaatatggagatattcaactttttttacttaaaag
 |||||||||| |||| ||||||||||||||||||||||||||||||||||| |||||||||| ||||||| | ||| | ||||  |  ||||| |||| ||| |||| ||        | |  | || ||   | ||||   |      | | |||||| ||| |    |      |||||   ||| | ||||| | | ||   ||| |  
GTCCAGGACCACATGAGATCCAGTATGATGAAGAATGGCTTGCAATAACACGGAAATTCAACAATGTTTTCTCCTTAACTCGGATGCCATTTACAATGCTgtcagtgcttaactgcgtataacgtctttgctcgttagcatgcaaacagagttctgaaaatattttttttaaaaaaataaatccagagtttttcaattgtcttgttttacag-

upper sequence: GRMZM2G461145_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA04G06310.1 (Glycine max), 5'ss of exon 5

ATCCAGGACCATATGAAATCCAGTATGATGAAGAATGGCTTGCAATAACACGAAAATTCAACAGTGTTTTCCCTTTAGC----ACGGACACAGTTTAC---TATGCG-
|| ||||||| ||||| || |||||||||||||||||| | ||||||||||| || ||||||  | | ||||||||  |    |  |   |||  | |   | || | ||  |||||| | | | |    ||  ||| || || || |  |   |  |    | |||   || | | | || | |    |       ||||| |  |  || | |                      
ATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAGgtgtgtgtgtgtgtgcatgtgaaagcacc-ttaattaaca-tttaggatttgaattgtcaaataaaatcttttttgtccttcccattcctcttccccttcaaataataataataatgctatatgcacttgctgacag

upper sequence: GRMZM2G461145_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv18s0001g08180.t01 (Vitis vinifera), 5'ss of exon 7

ATCCAGGACCATATGAAATCCAGTATGATGAAGAATGGCTTGCAATAACACGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTAC-TATGCGgtcggtgcatataatatctttat-ttgttagcagttg--agcacatagttcatgctttgaaaaaattgtagccattgctaaatatggagatattcaactttttttacttaaaag----
  |||||||| ||||| || |||||||||||||||||| | ||||||||||| || ||||||  | | || |||||| | |   ||  ||  |  | || |||| ||| || |  | | | |   || ||     ||   |  ||  |  |||   ||| |      |   |   ||    || |   ||    | ||||||| |   ||  ||     
TGCCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTGGCAATAACACGGAAGTTCAACTCTATCTTTCCTTTAAC-CATCCATCGTGCAAATTTGGGgtctgtgtatcttctctatatgcattatttcagattattattactcaaatcacattttcattgtggtcctgtttttatataagagatagcctgttaacttttatgctttggaatgtag

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|211425655|gb|FL472964.1|FL472964

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|67037524|gb|CO464338.1|CO464338

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCAACACTCAAGAAGAACCGGCA-TGGGTCAGGGAGCA-G
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGA-CCGGCAATGGGTCAGG-AGCAAG

EST: gi|32834976|gb|CD974654.1|CD974654

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|211383644|gb|FL455006.1|FL455006

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|32863094|gb|CF002776.1|CF002776

EST:     GAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: GAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|83279349|gb|DV943357.1|DV943357

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|32930289|gb|CF035101.1|CF035101

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|32930245|gb|CF035057.1|CF035057

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|32833267|gb|CD972945.1|CD972945

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|17931921|gb|BM268881.1|BM268881

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCCACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

EST: gi|17931886|gb|BM268846.1|BM268846

EST:     CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCG                         GGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT
genomic: CGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTT

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: 48 (upstream exon), 47 (downstream exon)
Score: 141

ATCCAGGACCATATGAAATCCAGTATGATGAAGAATGGCTTGCAATAACACGAAAATTCAACAGTGTTTTCCCTTTAGCACGGACACAGTTTACTATGCGgtcggtgcat ... tacttaaaagGGATGAGCAGCTCGACACTCAAGAAGACCGGCAATGGGTCAGGAGCAAGTTGAATACTAGAGGAGCTAAGCCTTTTGATTTTGTTCAGACTGCACCATCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 77

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 66