ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GATCTTGGAGGAGGCAGAGGCTGAAAGAGAATCATGGGGTGAAAATCCCTTCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggagtcataatgtgaaggcgaattttttttccagtatgttgttttgtgtcatggttttcagttttgagcttcttcttgacag

Basic information

species	Zea mays
transcript	GRMZM5G862101_T03
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G862101_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os06g12220.1 (Oryza sativa), 5'ss of exon 5

GATCTTGGAGGAGGCAGAGGCTGAAAGAGAATCATGGGGTGAAAATCCCTTCTACGACAAAAATTACAGACACTAAACC-------TCTTCAAAATC---CACCTAGCAGgttagtggagt-cataatgtgaaggcgaattttt---tttccagtatgttg-----ttttgtgtca----tggtttt-cagttttgagcttcttcttgacag
            |||   ||||||||||||||||||||| |||||||| ||||| || ||||||||  ||  ||| | |       | ||||  | |    ||  | ||||||||   |     ||     ||    | | |||    ||   |||  | |     | | |  |||    |||| || |||  ||   | ||| |||  |||
----------ATGGCCAGGGCTGAAAGAGAATCATGGGGCGAAAATCCATTCTATGATAAAAATTATCGATGCTAGAACAATCTGTTGTTCACGACCACATACTCATCAGgttagcataacgtttaccaccaattatagtatttgcacttgtggtacctggcaaaatctaggatcacatgtggtcttacagagttacacctctacttcccag

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|60341836|gb|DN208809.1|DN208809

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|111433414|gb|EE297731.1|EE297731

EST:     TCTACGACAAAGATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|37397092|gb|CF635841.1|CF635841

EST:     TCTACGACAAAGATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|14245109|gb|BG873691.1|BG873691

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTNTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|32859322|gb|CD999003.1|CD999003

EST:     TAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|16378009|gb|BI992239.1|BI992239

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|211010604|gb|FL466934.1|FL466934

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCNATGCAAGCTTTTTAGTTGCAT
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTC-ATGCAAGCTTTTTAGTTGCAT

EST: gi|71771977|gb|DR969914.1|DR969914

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGC

EST: gi|71771976|gb|DR969913.1|DR969913

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|211010605|gb|FL466935.1|FL466935

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

EST: gi|211010606|gb|FL466936.1|FL466936

EST:     TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAG                         CTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC
genomic: TCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATC

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), 43 (downstream exon)
Score: 54

GATCTTGGAGGAGGCAGAGGCTGAAAGAGAATCATGGGGTGAAAATCCCTTCTACGACAAAAATTACAGACACTAAACCTCTTCAAAATCCACCTAGCAGgttagtggag ... ttcttgacagCTTGAAGACAACCTTTGCCCACGAGCCTCATGCAAGCTTTTTAGTTGCATCAGACTGAAGACGACCTTCCCAAATTTCTGACTCTCAGTATACTATACCT

Block sizes: 43 (upstream exon), 46 (downstream exon)
Score: 26

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 30