ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gttttactgcagcaatccgttcgattcgttgcacaaaactgcgaagcagacacggtacgttggcttattcgccctcttttttttttgatcgggttctctgttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGTCTGCTTCGGCCGGACCTGGTGCGGGCGCTCGTGAACCTAAGCGTCGTGT

Basic information

species	Zea mays
transcript	GRMZM2G161658_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G161658_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g15130.1 (Oryza sativa), 3'ss of exon 1

---gttttactgcagcaatccgttcgattcgtt-gcacaaaactgcga-agcagacacggtacgt-tggcttattcgccctcttttttttttgatcgggttctctgttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGTCTGCTTCGGCCGGACCTGGTGCGGGCGCTCGTGAACCTAAGCGTCGTGT
   | |||||     |  |         |  || |||   |   ||   |||||   | || |   | | || || |    ||      |  |||  ||||    || | ||  |||||||||| | ||||||||||||||| |||  ||||||||||||||| || ||||| ||| |||||||||||  |||||  || | ||| ||||| | ||
gttggtttacgtttacggtttaccatccttattagcagttagtagcattagcagcatcagtccccattgtttgtttgattgctcgagggt--gatttggttg---gtgctctcaagGTGTTCGTCGCGGGGCACGACTGGGGCGCCGTCGTGGCGTGGCAGCTGTGCCTGCTCCGGGCGGACCTGGTGACGGCGCATGTCAGCCTCAGCGTGGAGT

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|211266833|gb|FK956435.1|FK956435

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGA
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGA

EST: gi|211269275|gb|FK956449.1|FK956449

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211338615|gb|FL266225.1|FL266225

EST:     ATGTCGTCGGGGACCTCGTTGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211266837|gb|FK956439.1|FK956439

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211340999|gb|FL266228.1|FL266228

EST:     ATGTCGTCGGGGACCTCGTTGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211269279|gb|FK956453.1|FK956453

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211266832|gb|FK956434.1|FK956434

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211266839|gb|FK956441.1|FK956441

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGNTCGTGGTGGTGCACGACTGGGGAGCCATCGTGGCGTG
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTG

EST: gi|211269276|gb|FK956450.1|FK956450

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCCGTGGTGGGG
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTC-GTGGTGGGG

EST: gi|211271711|gb|FK956459.1|FK956459

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211338614|gb|FL266224.1|FL266224

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|149055255|gb|EE156183.2|EE156183

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211338616|gb|FL266226.1|FL266226

EST:     GGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: GGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211271709|gb|FK956457.1|FK956457

EST:     ATGTCGTCGGGGACCTCGTTGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211266835|gb|FK956437.1|FK956437

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211266834|gb|FK956436.1|FK956436

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211266828|gb|FK956430.1|FK956430

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211340998|gb|FL266227.1|FL266227

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|149205511|gb|ES701107.1|ES701107

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211269269|gb|FK956443.1|FK956443

EST:     ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCATCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

EST: gi|211266838|gb|FK956440.1|FK956440

EST:     ATGTCGTCGGGGACCTCGTTGCGCTCATCTCCGACCTCGGCCAGCGGCAG                         GTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT
genomic: ATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGT

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), 47 (downstream exon)
Score: 23

CTACGGCGACTCCGACTCCCCGCCTGATGCGTCCAGCTACACCACCTTCCATGTCGTCGGGGACCTCGTCGCGCTCATCTCCGACCTCGGCCAGCGGCAGgttttactgc ... ttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGTCTGCTTCGGCCGGACCTGGTGCGGGCGCTCGTGAACCTAAGCGTCGTGT

Block sizes: 43 (upstream exon), 49 (downstream exon)
Score: 17

Block sizes: 43 (upstream exon), 45 (downstream exon)
Score: 25

Block sizes: 43 (upstream exon), 37 (downstream exon)
Score: 9

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tacgttggcttattcgccctcttttttttttgatcgggttctctgttcgctgcagGTGTTCGTGGTGGGGCACGACTGGGGAGCCACCGTGGCGTGGCAGCTTTGTCTGCTTCGGCCGGACCTGGTGCGGGCGCTCGTGAACCTAAGCGTCGTGT