ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtagccgctctctcgagctctctttatctgtgttccctatgttcatcagaattcctaccttacctctcgctcgctctcctgtggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATGGATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAAC

Basic information

species	Zea mays
transcript	GRMZM5G891739_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G891739_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g11960.3 (Oryza sativa), 3'ss of exon 1

----------------------------------gtagccgctctctcgagctctctttatctgtg---ttccctatgttcatcagaat--tcctaccttacctctcgctcgctctcctgtggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATGGATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAAC
                                  |    ||| | |   |||||   |  |  |||   |  ||| |  ||       |  |  |     ||  |||| || ||     ||   |   |||||| |||||||||||||| | |||||| ||| |  |||||||    ||||| ||||||||||||  ||| |||||||| ||||| ||||||||||| ||
gtacgcgtctcctccctgtagctccgtgctgttcgcctgcgcgcacagcagctcgtctcgtaagtgaattgacctcttctcgctgatgtgattttggtggactactcgatctctgcgtggt--tttttagGGTATACCGAGGTGAGGGGGAGGGTCACCGGCCTCGCTCCGGGCCTCCATGGCTTCCACATCCACTCCTTTGGCGACACCACCAACGGCTGCAACTCTAC

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|67039156|gb|CO465411.1|CO465411

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|211127614|gb|FL312983.1|FL312983

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|211400090|gb|FL367035.1|FL367035

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|211279556|gb|FL330408.1|FL330408

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|211437458|gb|FL316488.1|FL316488

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|78027318|gb|DV495705.1|DV495705

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|211462831|gb|FL343053.1|FL343053

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|47962526|gb|CN845235.1|CN845235

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         AGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|211383533|gb|FL339775.1|FL339775

EST:     CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

EST: gi|45568100|gb|CK985902.1|CK985902

EST:     CAACAGCACGGTCGCGGGGGTCATTCACTTCTTCGAGGACCCCTCCACCA                         GGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG
genomic: CAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATG

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: 44 (upstream exon), 49 (downstream exon)
Score: 92

GCAGGGAAAGCCGGCGGACTCAAAGGGGTTGCCCTCATCGGCGGCAGCGCCAACAGCACGGTCGCTGGGGTCATTCACTTCTTCGAGGACCCCTCCACCAgtagccgctc ... tggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATGGATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 161

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 146

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 142

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ctatgttcatcagaattcctaccttacctctcgctcgctctcctgtggctgccagGGTACACCGAGGTGAGGGGCAAGGTCACGGGCTTGACTCCGGGAAGGCATGGATTCCACATCCACGTCTTCGGCGACACTACCAATGGCTGCAACTCAAC