ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CATCTACCTAGTATCACATTACTCAATTCGTCATTGGTCAGCATTGAGTGGTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataacattttcttttctgttgtgtgttgtcttcccatcctctcgttattgaatttatactgataacaggcattgttgtacag

Basic information

species	Zea mays
transcript	GRMZM2G048045_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G048045_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 5'ss of exon 5

CATCTACCTAGTATCACATTACTCAATTCGTCATTGGTCAGCATTGAGTGGTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataacattttcttttctgttgtgtg-----ttgtcttcccatcctctcg--ttattgaatttatactgataacaggcattgttgt----acag
  ||||  || | ||||||| |||  ||| ||||||||| ||| |||||||| | ||||| || ||||| || ||||||||||| |||||||| ||||||||||| || | | || || | ||||   |      || | | | |  | |||    ||  || |||  || ||||        || || |    ||||
TGTCTATTTAATGTCACATTTCTCTGTTCTTCATTGGTCGGCACTGAGTGGTCTTGATACCGAGCTTATGAATGTCCAAGGACATGTGGCACCCAGGGAGgtatggtaccttctttttctttgttccatcaatttttatttactctgcttctaagttttatgtattagtattgatgtttcatgtttttcttattacag

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|78103766|gb|DV522194.1|DV522194

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

EST: gi|211456722|gb|FL410364.1|FL410364

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAG
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAG

EST: gi|211509379|gb|FL412049.1|FL412049

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

EST: gi|33101585|gb|CF061545.1|CF061545

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

EST: gi|148942098|gb|EC887100.2|EC887100

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

EST: gi|211109347|gb|FL402577.1|FL402577

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

EST: gi|71332422|gb|DR803167.1|DR803167

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

EST: gi|211169918|gb|FL423118.1|FL423118

EST:     TGTCGATACTGAACTTTATCA-CGTCCA-GGACACGTGGCACCAAGGGAG                         AAGCATGCANGAAGTTTATCAGAGGGTTTT-ATCAGACTCA-GTTAGTACC
genomic: TGTCGATACTGAACTT-ATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

EST: gi|7137774|gb|AW499263.1|AW499263

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACATGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATC

EST: gi|71320210|gb|DR796860.1|DR796860

EST:     GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAG                         AAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC
genomic: GTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACC

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: 111

CATCTACCTAGTATCACATTACTCAATTCGTCATTGGTCAGCATTGAGTGGTGTCGATACTGAACTTATCAACGTCCAAGGACACGTGGCACCAAGGGAGgtatgataac ... tgttgtacagAAGCATGCAGGAAGTTTATCAGAGGGTTTTTATCAGACTCAAGTTAGTACCTTGGCAGTCAAGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 145

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 96