ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTGTTCGGCCCACATGTTGTGGGTTGGTGAGCGCACTCGTCAACTCGATGGAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatctacatccctttttctattggttaagtgaaatctaggcactgtacttgtcctgtgatcctgactgtcaaattggcatgtattttgtggaatgtag

Basic information

species	Zea mays
transcript	GRMZM2G117707_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G117707_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g42960.2 (Oryza sativa), 5'ss of exon 2

TTGTTCGGCCCACATGTTGTGGGTTGGTGAGCGCACTCGTCAACTCGATGGAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatctacatccctttttctattggttaagtgaaatctaggcactgtac---ttgtcctgtg-atcctgac-tgtcaaattggcatgtattttgtggaatgtag
 || || ||||||||| | |||||||||||||||||||| || ||||||||||| ||||||||||| || |||||||||||||| ||||||||||||||||||||   |   |   ||||  ||   |||| ||||||||       |||      || | |||| ||  |||| | ||||| || |||  |   |||| |||||||
CTGCTCAGCCCACATGCTATGGGTTGGTGAGCGCACTCGCCAGCTCGATGGAGCTCATGTTGAATTTCTCCGTGGTGTTGCCAACCCTCTTGGCATAAAGgtcagcattgagtttattttcataa-agttatgtgaaatcctaatgttgtttgcagtgccttgtggatgttgacatttcaaactgacattgaccctgtgtaatgtag

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|76291136|gb|DV030704.1|DV030704

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32849969|gb|CD989650.1|CD989650

EST:     GAGCGCATGTTGAATTCCTTCGCGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32850166|gb|CD989847.1|CD989847

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCCGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|78092820|gb|DV521194.1|DV521194

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|61118358|gb|DN559319.1|DN559319

EST:     CCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: CCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32837625|gb|CD977303.1|CD977303

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|67030191|gb|CO458940.1|CO458940

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|78117894|gb|DV536281.1|DV536281

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|61118357|gb|DN559318.1|DN559318

EST:     CCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: CCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32848606|gb|CD988287.1|CD988287

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|37416855|gb|CF646079.1|CF646079

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|78108038|gb|DV526456.1|DV526456

EST:     TCCTTCCGTGGTG-TGCCCATCCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: TCCTT-CGTGGTGTTGCCAAT-CCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|24934562|gb|CA452780.1|CA452780

EST:     GAGCGCATGTTGAATTCCTCCGTGGTGTTGCCAACCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32850081|gb|CD989762.1|CD989762

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACANAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32849069|gb|CD988750.1|CD988750

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGTCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|78082881|gb|DV511274.1|DV511274

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|76019203|gb|DT946373.1|DT946373

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32920110|gb|CF024922.1|CF024922

EST:     GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|24934601|gb|CA452819.1|CA452819

EST:     GAGCGCATGTTGAATTCCTCCGTGGTGTTGCCAACCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

EST: gi|32850168|gb|CD989849.1|CD989849

EST:     GAGCGCATGTTGAATTCCTTCGTGGGGTTGCCAATCCTCTTGGCATAAAG                         GTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG
genomic: GAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTG

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: 48 (upstream exon), 49 (downstream exon)
Score: 304

TTGTTCGGCCCACATGTTGTGGGTTGGTGAGCGCACTCGTCAACTCGATGGAGCGCATGTTGAATTCCTTCGTGGTGTTGCCAATCCTCTTGGCATAAAGgtcagatcta ... tggaatgtagGTGAGCGACAAAATGAACCCCAGTGACTTGGTGAAGCTGATTGAGATTCTGAACCCTTCAAACAAACCTGGAAGGATCACCATAATTACAAGGATGGGGG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 437

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 625