ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttggtattctataagtatattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag

Basic information

species	Zea mays
transcript	GRMZM5G823629_T03
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 5'ss of exon 3

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttggtattctataagta-tattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag
 |||||| | ||||||||| |||| |||| ||||||||||||||| || || || || ||||| |||||||||||||||||||||||||||||||| ||||||| |  || ||||  |   ||  ||    | | || || ||  | | ||||||||||  ||    || |||| |||||||
CTTACCAGTGCCAGAACTAATAAAATTTGTCTTTTTTGCAAACCTATCAATTGTTGGGATGAATGTTAGTTTGATGTGGAACTCTGTTGGATTCTACCAGgtgaagaaagtaactaagtcctttaatgttcacttttagaattggatgcatatactaat-ttgctcctcatgcctttttcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 5'ss of exon 3

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttgg--tattctataagta-tattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag
||||||||| |||||||| || || || | ||||||||||||| | || || || || ||||| ||||||||||||||||||||||||||||||||||||||| |   || || |||      |||||||   | | || || |  |  | | ||||||||  |  || || |||| | |||||
TTTACCATTGCCAGAACTCGTTAAATTCGTCTTTTTTGCAAACTTATCAATTGTTGGGATGAATGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgggaagagtaattttaaatccttctatattcaatgttagaatggagggcacatactaatttt-cgtttcatgcc-tcttcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA16G27820.1 (Glycine max), 5'ss of exon 2

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgag--ggcagaaactttggtattctataagtatattgga-gttaaacgtatatactaatgctgtgtatcttgcccttttcag
|||||| || ||||| ||  |||| ||||   |  |||| ||| | || || || |||||||| |||||| | ||||||||||| |||||||||||||| |||||  ||    | ||||     |||||  ||  |||      |      | |   ||||  |   | | | ||| ||  |||
TTTACCCTTGCCAGATCTTCTAAAATTTGTTCTCGTTGCTAACTTCTCTATTGTTGGAATGAATGTTAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtgagttgggctgagcttta----tctattggttcattcactaatgccttcagaagttaatattcactttttagccattgacag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G39590.1 (Glycine max), 5'ss of exon 2

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttggtattctataagtatattgga--gttaaacgtatatactaatgctgtgtatctt-----gcccttttcag---------------
| | ||| || | ||  || | || |||| ||| ||||||||  | || || || || ||||| || ||||| ||||||||||||||||| ||||||||||| |    |     ||| |||  ||||||  || ||| |  ||       ||| ||||| | |   ||| |         |||    |               
TCTTCCAGTATCTGATATAATCAAATTTGTCTTATTTGCAAATTTCTCCATTGTTGGGATGAATGTGAGTTTAATGTGGAACTCTGTTGGTTTCTATCAGgtaactttaaggcttttagtagcctataa-cattttgaaccgtctttataataaactaaagataaatatttataataattcttccttgaaattaaattgtcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G08700.1 (Glycine max), 5'ss of exon 3

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgag--ggcagaaactttggtattctataagtatattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag
|||||| || ||||| ||  |||| ||||   | ||||| ||| | || || || |||||||| |||||| | ||||||||||| |||||||||||||| |||||  ||    | ||||     |   | | |  |||   |     | |    | | ||  |   | | | ||| ||  |||
TTTACCCTTGCCAGATCTTCTAAAATTTGTTCTCTTTGCTAACTTCTCTATTGTTGGAATGAATGTTAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtgagttgggctgagctttatctattggttaattcattaatgc----cttcagaagttatattcactttttagccattgacag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G15250.1 (Glycine max), 5'ss of exon 2

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttggtatt---ctataagtatattggagttaaac---gtatatactaatgctgtgtatct-tgcccttttcag---------------------
  | || ||||| || ||  | || |||| ||| ||||||||  | || || ||||| ||||| || |||||||||||||||||||| || ||||||||||| |   |   |  |||  | ||   || | |   |||     || |||   |    |   || | |  |||| | | |  ||| |                       
CCTTCCCTTACCTGATCTTATCAAATTTGTCTTATTTGCAAATTTCTCTATTGTCGGCATGAATGTGAGTTTGATGTGGAACTCTGTCGGTTTCTATCAGgtaacaactatattttttttttttatctttgaaagtatcaagttttaacactgccagtgacaaagataggtatttatactgtttccttcctttgaaatgaaaacttcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G31940.1 (Glycine max), 5'ss of exon 4

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttg-gtattctataagtatattggagttaaac---gtatatactaatgctgtgtatct-tgcccttttcag---------------------
  | || ||||| || ||  | || |||| ||| ||||||||  | || || ||||| |||||||| |||||||||||||| ||||| || ||||||||||| |    |||   |||    ||| | | |   |||   | || |||   |    |   || | |  |||| | |    ||| |                       
CCTTCCCTTACCTGATCTCATCAAATTTGTCTTATTTGCAAATTTCTCTATTGTCGGCATGAACGTGAGTTTGATGTGGAATTCTGTCGGTTTCTATCAGgtaa--ctagattttttacaaattttttgaaagtatcaaattttaacactgccagtgacaaaggtaggtatttatagtgtttccttctcttgaaatgaaaacttcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G15280.1 (Glycine max), 5'ss of exon 3

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttggtattctataagtatattggag----ttaaacgtatatacta-atgctgtgtatcttgcccttttcag----------------
| | |||||| | ||  || | || |||| ||| ||||||||  | || || || || ||||| || ||||| ||||||||||||||||| ||||||||||| |    |     ||| |||  ||||||  || ||| |     || |  ||| |  ||| ||  | | |||  |     || |                  
TCTTCCATTATCTGATATAATCAAATTTGTCTTGTTTGCAAATTTCTCCATTGTTGGGATGAATGTGAGTTTAATGTGGAACTCTGTTGGTTTCTATCAGgtaactttaaggcttttagtagcctataa-cattttgaaccctctttatagtaaactctagataatatttataataattattccttgaaataaaattgtcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA10G36620.1 (Glycine max), 5'ss of exon 2

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagg---gcagaaactttggtatt--ctataagtatattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag
|||||| |||||||| ||  |||| ||||  || ||||| ||| | || || || |||||||| || ||| | ||||||||||| |||||||||||||| |||||       |||  ||   ||||      | ||  |||   |    |   | |   |||   | | |   |  || ||  |||
TTTACCCTTACCAGAGCTTCTAAAATTTGTTTTCTTTGCTAACTTCTCCATTGTTGGAATGAATGTCAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtgagttgtattgaattttcactattggtccaaggtccattaatgc---attcagaagttaa-attttcttcttaaccattggcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 3

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttg-gtattctataa-gtatattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag
| | |||||  |||| ||  | ||||||    | ||||| ||  | ||||| || |||||||| |||||| | ||||||||||||||||| || |||||||| |  |      ||||  || || | ||| || | |||  |||    |  | || |  ||   | | | ||   |||  |||
TCTTCCATTTACAGAGCTTCTTAAGTTTATTCTGTTTGCTAATTTTTCGATTGTTGGAATGAATGTTAGTCTTATGTGGAACTCTGTTGGGTTTTATCAGgtaaatgtgtttgctttttgtgttatgtaacgtttcttgttgtt----ggttctaatggtgtcttctcttttatgcttaacag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttggtat-tctataagtatattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag
| | ||  | ||||| ||  | || ||||  || ||||| ||| | || || || |||||||| |||||||| ||||||||||| || || |||||||||||     | ||    |  || | | ||    || |||  | |  ||    |  |  | |    | | |  |     | ||||
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag

upper sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv07s0031g01860.t01 (Vitis vinifera), 5'ss of exon 3

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggc-agaaact-ttggtattctataagtatattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag-----------------
| ||||| || | || ||  | |  ||||  || ||||||||  |||| || || ||||||||||| ||||| |||||||||||||| |||||||||||||| ||     | ||||  ||   || | |     | |||   | | |  | | |   || | |     |  ||  ||||                     
TCTACCAGTATCTGAGCTTCTGAGATTTGTTTTGTTTGCAAATTTGTCAATTGTTGGAATGAACGTGAGTTTAATGTGGAACTCTGTGGGATTCTATCAGgtcagttttgggaactgctgactttttgttctccttttgctctcatattttttt-tcaaagttacaagttatgttctttctcttcaaactttgatgtcag

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|33095403|gb|CF055397.1|CF055397

EST:     TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCGAAGTTGTGTATCATTCCAGTCAAAAGCATTCTGGAAATCATATTC
genomic: TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcag ... cccttttcagATCGCGAAGTTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATATTC

EST: gi|33093441|gb|CF053435.1|CF053435

EST:     TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCGAAGTTGTGTATCATTCCAGTCTTATGCCATTCTGGAAATCATATT
genomic: TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcag ... cccttttcagATCGCGAAGTTGTGTATCATTCCAGTCTTATGC-ATTCTGGAAATCATATT

EST: gi|71436501|gb|DR817551.1|DR817551

EST:     TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCGAAGTTGTGTATCATTCCAGTCTTATGCTTTCTGGAAATCATATTC
genomic: TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcag ... cccttttcagATCGCGAAGTTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATATTC

EST: gi|76015510|gb|DT942680.1|DT942680

EST:     TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCGAAGTTGTGTATCATTCCAGTCTTAT
genomic: TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcag ... cccttttcagATCGCGAAGTTGTGTATCATTCCAGTCTTAT

EST: gi|149089689|gb|EE178948.2|EE178948

EST:     TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCGAAGTTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATATTC
genomic: TCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcag ... cccttttcagATCGCGAAGTTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATATTC

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), 49 (downstream exon)
Score: 86

TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcag ... cccttttcagATCGCGAAGTTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATATTCGACAAAGTTCGTTACTCAAGAGATACAAAGCTCAGTATAGTGCTTGTCC

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 95

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 133