ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CATGCTTCGTTGAGTCCTGACAGAAAGGTGGTTGTTATTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgctaatcaatgtgctttttttagctcaagttaatagactgttatcgtaaaagtgttgtgatgatgtgaattaggtcatttcaccatttgattttgtttctggatgcag

Basic information

species	Zea mays
transcript	GRMZM2G109039_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G109039_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 5'ss of exon 9

CATGCTTCGTTGAGTCCTGACAGAAAGGTGGTTGTTATTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgta--ccatcgc-taatcaa---tgtgctttttttagctcaagt---taatagact-gttatcgta-aaagtgttgtgatgatgtgaattaggtcatttcaccatttg--attttgtttctggatgcag
||| |  | |||||||||||||||||| | | |||||||||||| ||||||||| ||||| |||| ||||| || || || |||||||||  ||| | |  |  |||   || || |       | ||  |   | |||  |  | | |  || ||| |  |||||   ||     | |      | |  | | |  | ||||||||    |||||
CATACAGCATTGAGTCCTGACAGAAAGCTTGCTGTTATTGTGGGGGATGATCCTAATGGTTTACTAATTGACGCCAATTCAGGAAAGgtatgccagcacacacgcaaacctgggcataaaacgtcacatatatatgataaccaagctgtgatagaaaattatgtgacattgaagtatggcatgcatgataactggttactttgtttccctgtgcag

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|76290624|gb|DV030192.1|DV030192

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|37401261|gb|CF637993.1|CF637993

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|211395427|gb|FL283717.1|FL283717

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|211395430|gb|FL283720.1|FL283720

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATCCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|22472113|gb|BU036593.1|BU036593

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|60336793|gb|DN203766.1|DN203766

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|78544498|gb|DV621996.1|DV621996

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|58029875|gb|CX725302.1|CX725302

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCCAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTC
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTC

EST: gi|60357769|gb|DN224742.1|DN224742

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|60347828|gb|DN214801.1|DN214801

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|166469418|gb|EG283859.1|EG283859

EST:     GATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: GATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|8368895|gb|BE051840.1|BE051840

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGG

EST: gi|6827520|gb|AW331163.1|AW331163

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|453303|gb|T15277.1|T15277

EST:     TGGGGTGATGATCCTGATTGGTCTACTTAATTGATGCAA-CTCTGGAAAG                         GCAGTTCATTCCATAAA
genomic: TGGG-TGATGATCCTGAT-GGTCTACTTA-TTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAA

EST: gi|211395428|gb|FL283718.1|FL283718

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|67012835|gb|CO441584.1|CO441584

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|78178962|gb|DV549335.1|DV549335

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|37361241|gb|CF602530.1|CF602530

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|60341652|gb|DN208625.1|DN208625

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|71304856|gb|DR788543.1|DR788543

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

EST: gi|50334469|gb|CO529595.1|CO529595

EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG

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: 324

CATGCTTCGTTGAGTCCTGACAGAAAGGTGGTTGTTATTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGGAGCCCTGATGGGCGAACATTTGCTACCGGCAACCAAGACAAGACATGCC

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 195

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 261