ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttgtgtataggtattgctctgttcaaattcgccaaattttttttagatatggaaagttg...

Basic information

species	Zea mays
transcript	GRMZM2G012284_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 4

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaa-ctcaatggtttgttttatgtacattttgtgtataggtattgctctgttcaaattcgccaaattttttttagatatggaaagttg----
 |||||||| |||||||| |||||||||||||||||||| |||||||||||||||||||||||||||||| |||| || ||||||||||| || ||||| |||||||    ||||| ||  ||| |||| |||||  ||  ||| ||||||| ||    ||| ||||   ||  |   | |   |  ||     |   ||     
CACTGCACCTGCTAACTCTCAAACAACTTGGACAATGCGCGCTACCTTCCCTGAATATGTGGTTGCTCTTGCTACCATCGTTGGATCTGTTCTCTTCACAgtgagttttacttcaatcttcatgttttgctttat-caccgtttctgtatagctaca--tctattca--ctctactggtctgcatgtgaccgatagctttatgtc

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA16G19230.1 (Glycine max), 5'ss of exon 3

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTG-GTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttgtgtataggtattgctctgttcaaattcgccaaattttttt--tagatatggaaagttg-
  ||||     ||   ||  | | ||| ||||| |||||| ||||||| || ||||||||  ||||| ||| |||| ||||||||||||||||||||  | || || ||||| |  |   |||   ||  ||||  |   |    | |   | |  |  | ||    |  |    |   || |||  |  | ||      ||  
-TCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTTGTTGCACTTGCTACTATTGTTGGATCTGTGCTTTTTGCTgtaagctcattcttcataaaat---ttaatttacctgtttcaattttcctgcttcttatttggcataggtttttaggcttgtttggttaacattattgttttg

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA03G07890.1 (Glycine max), 5'ss of exon 4

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttgtgtatag--gtattgctctgttcaaattcgccaaattttttttagatatggaaagttg----
 |||||     ||   ||  | | ||| ||||| |||||| ||||||| || |||||||| ||||||||| | || ||||||||||||||||||||  | || |||| ||  |  |    ||| |      || |||  || || || ||   ||| | || | ||  ||||  |   |||||||||   | || ||   ||    
CACTGCCAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaatcgtatatcgtatgct---gcctaggtagtttatgggtttatctgtactactttctttcaattttc---attttttttccttgtgaaagtgtgtgtg

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 4

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttg--tgtataggtattgctctgttcaaattcgccaaattttttttagatatggaaagt-tg
 |||||     ||   ||  ||| ||| ||||| |||||| ||||||| ||||||||||| ||||||||| | || ||||||||||||||||||||  | || |||| ||  |  |    |||   ||  |   |||  || ||  | |||   || | || | ||  ||||   ||  |||||| | |  |  |   || ||
CACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaatcctatatcgtatg--ctgcctagggtagtttatggatttatctctactactttctttcaatt-atcattttttttcttgtgaaagtgtgtgtg

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 4

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttgtgtataggtattgctctgttcaaattcgccaaattttttt--tagatatggaaagttg-
  ||||     ||   ||  | | ||| ||||| |||||| ||||||| || |||||||| ||||| ||| |||| ||||||||||||||||||||  | || || ||||| |  |   |||   ||  ||||  |   |    | |   | |  |  | ||    |  |    |   || |||  |  | ||      ||  
CTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTGTGCTTTTTGCTgtaagctcattcttcataaaat---ttaatttaactgtttcaattttcctgcttcttatttggcataggtttttaggcttgtttggttaacattattgttttt

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 4

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttgtgtataggtattgctctgttcaaattcgccaaattttttt--tagatatggaaagttg-
  ||||     ||   ||  | | ||| ||||| |||||| ||||||| || |||||||| ||||| ||| |||||||||||||||||||||||||| | || || ||||| |  |   |||   ||  || |  |   |    | |   | |     | ||    |  |    | | || |||  |  | ||      ||  
CTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACAATTGTTGGATCTGTGCTTTTCGCTgtaagctcattcttcataaaat---ttaattcacctgtttcaattttcctgcttcatatttggcataggtttttagacttgtttggttaacattattgttttg

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 4

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcattttcaactcaatggtttgttttatgtacattttgtgtataggtattgctctgttcaaattcgccaaattttttttagatatggaaagttg-
||| ||     | |  ||  | | ||| ||||| |||||| |||| || || |||||||| ||||||||| | ||||||||||| || || |||||||||||  |  |||| |    ||| || |  |   |   |   ||   |  | |||  ||  |||||   |  | |   | | ||  ||   ||    ||  |  
TACAGCTAATCCCACATCTGAGAAAACATGGACTATGCGTACTACTTTTCCAGAATATGTTGTTGCTCTTGCGACAATTGTTGGGTCAGTTCTTTTCACGgtatgaccattgttctttca-tgttgagaagtgcattgtttgctttgaaaggatttaatctgtcttatattgttgattcttcattgactaacacaaactct

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|38568991|gb|CF974876.1|CF974876

EST:     GGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACG                         ATATTTGGTGGTGTCGGAATTGCCTGCCTTCCATTGGGACTTATATTCTCA
genomic: GGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcat ... tttttggtagATATTTGGTGGTGTCGGAATTGCCTGCCTTCCATTGGGACTTATATTCTCA

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), 49 (downstream exon)
Score: 267

TACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTGTGCTTTTCACGgtgagttcat ... tttttggtagATATTTGGTGGTGTCGGAATTGCCTGCCTTCCATTGGGACTTATATTCTCATTTGTTCGTCGTCCAAAAGCTGTAATTACACGCTCACAATATATAAAG

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 304

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 435