ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGCTGCAGTGAGCAAGAACATGGTGGAGAGCCTGGCAGTGCCAGCATTCCGCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggatttggagcaggcatgactgcacttgaagctcctttgtttttcttgccccgcttcctgattactattgggctgatttgattttgacag

Basic information

species	Zea mays
transcript	GRMZM2G117786_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G117786_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os08g33440.1 (Oryza sativa), 5'ss of exon 1

GGCTGCAGTGAGCAAGAACATGGTGGAGAGCCTGGCAGTGCCAGCATTCCGCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgagg---atttggag----caggcatgactgcacttgaagctcctttg----tttttcttgccccgct--tcctgattactattggg-ctgatttgattttgacag
||||||||||||||||||||||||||||||||| || ||||| |||||||| || || ||||| ||||| |||||||||||||||||||| || || ||||||       |||||||      ||  || | |  ||| || ||||| ||    ||| |        | |  |  || | | | |||||  ||||||| ||| |  ||
GGCTGCAGTGAGCAAGAACATGGTGGAGAGCCTCGCGGTGCCCGCATTCCGTGTGGGATACCCAATTGTGACCGATAAGCTCGATGAGCTATATGAGAAGgtgctatacctttggagactttgggggtggcagtgctt-aacctcctgtgatggtttattacattttggtcattttgttgattgttggggttgatttggtttggttag

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|71767883|gb|DR965820.1|DR965820

EST:     GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

EST: gi|5325071|gb|AI783262.1|AI783262

EST:     GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

EST: gi|76013819|gb|DT940989.1|DT940989

EST:     CCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: CCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

EST: gi|91056736|gb|EB167154.1|EB167154

EST:     CGTTGGGTACCCCATTGTTAACCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: CGTTGGGTACCCCATTG-TAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

EST: gi|71763414|gb|DR961351.1|DR961351

EST:     CGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: CGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

EST: gi|30088033|gb|CB886238.1|CB886238

EST:     ACCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: ACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

EST: gi|78021875|gb|DV490262.1|DV490262

EST:     GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

EST: gi|5846883|gb|AI999966.1|AI999966

EST:     GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAG                         GTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC
genomic: GCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCC

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: 153

GGCTGCAGTGAGCAAGAACATGGTGGAGAGCCTGGCAGTGCCAGCATTCCGCGTTGGGTACCCCATTGTAACCGATAAGCTCGATGAGCTGTACGAAAAGgtgaggattt ... attttgacagGTTAAGCCAAAGGGAGTGACAATGACAGTGCTGTTGGCGAAGGCTGCAGCCATGGCTCTTGCACAGCACCCTGTTGTCAATAGTACCTGCAGGGATGGAA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 150

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 108