ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AACCTCGCCCCCAGCGCCTCCTTCCGCAGTCATGTACCGCGCGGCCGCTAGCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcagactcattgatgtgcgtccaagttgtgacggggtctgatgaggacctcgctctcagatttggcaatgatgggttctggtagttctgcgtgc...

Basic information

species	Zea mays
transcript	GRMZM2G458208_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G458208_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 5'ss of exon 1

------------------------------AACCTCGCCCCCAG-CGCCTCCTTCCGCAGTCATGTACCGCGCGGCCGCTAGCCTCGCCTCCAAGGCGCGGCAAG--------CCGGGAACAGCCTCGCCACCCGCCAGgtgagagcagactcattgatgtgcgtccaagttgtgacggggtctgatgaggacctcgctctcagatttggcaatgatgggttctggtagttctgcgtgc
                                ||| |||||  | |||  |    | | | |||||||||||||||||| ||||||||||||||||| |||  ||        |  |   |  |  | || |||||   | ||    || |||   || | || | |   |  |  ||  || |||   |      |  ||  | || |    || ||                     
TCACCTCCCCTCCCCTCCCATCCCTCCTCCTCCCTAGCCCCAGGTCGCTGCTCGGCTCCGCCATGTACCGCGCGGCCGCCAGCCTCGCCTCCAAGGCTCGgtgagtgtgcttgcttgattcccctcctccgcccgcattgcgatctgagtctcgc-gacgcgcctgctgttctttccgacgtttgagcggtttgctgaact--gtttcgttgttggtgcag------------------

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|31355867|gb|CD440224.1|CD440224

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCGCCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAATTATGCTGCGAAGGACATCAAG
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

EST: gi|89754394|gb|DY685176.1|DY685176

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

EST: gi|88747169|gb|DY531310.1|DY531310

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

EST: gi|31441079|gb|CD510510.1|CD510510

EST:     ACAGCCTCGCCACCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG
genomic: ACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

EST: gi|31349389|gb|CD433746.1|CD433746

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCGCCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAATTATGCTGCGAAGGACATCAAG
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

EST: gi|94476466|gb|EB705424.1|EB705424

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

EST: gi|26557261|gb|CA829496.1|CA829496

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAG                         GGTGGAAAG-AGGGCTTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATC
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGG-AAGCA-GGC-TTGCCTGGAGCAGGAACTATGCTGCGAAGGACATC

EST: gi|31355665|gb|CD440022.1|CD440022

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCGCCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAATTATGCTGCGAAGGACATCAAG
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

EST: gi|8367181|gb|BE050126.1|BE050126

EST:     GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAG                         GTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG
genomic: GCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAG

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: 17 (upstream exon), 49 (downstream exon)
Score: 82

AACCTCGCCCCCAGCGCCTCCTTCCGCAGTCATGTACCGCGCGGCCGCTAGCCTCGCCTCCAAGGCGCGGCAAGCCGGGAACAGCCTCGCCACCCGCCAGgtgagagcag ... tgctttgtagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAGTTTGGTGTTGAGGCCCGTGCTCTGATGTTGAGGGGTGTTGAGGAGTTGG

Block sizes: 18 (upstream exon), 49 (downstream exon)
Score: 47

Block sizes: 19 (upstream exon), 49 (downstream exon)
Score: 60