ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATACAAGGGTTCTGGGGGAGGGCGATGACCCGTCTTCGCCAATCGGCCGTGGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtagcaccattgcattgtatatacccatctgaagaattggggcctttgtcacatctttatgcatgaacag

Basic information

species	Zea mays
transcript	GRMZM2G141665_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G141665_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g09430.1 (Oryza sativa), 5'ss of exon 2

ATACAAGGGTTCTGGGGGAGGGCGATGACCCGTCTTCGCCAATCGGCCGTGGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgt--agcagt-----------agcacca-ttgcattg-tatatacccatctgaag-aattggggcctttgtcacatctttatgcatgaacag--------
| || |||||  | || ||||| ||||| |||||||| || || |||||||||||||| || ||||||||||| ||||||||   | |||| ||||||||||   ||  |           | |  || || || || ||||||||  | |   | |||   | | |  ||      | | ||||    ||         
ACACGAGGGTGTTAGGAGAGGGTGATGATCCGTCTTCTCCTATTGGCCGTGGATGGCACTCTACATTTCTCACCAAAGATAAGAGCATTGCAGAGGAAAGgtctggctttctttttctgaaatcttcagttacactgatatataccgctatatcgtaatcttgtcatgagttctgaatgtttgcacttgcattcagaaac

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|37375552|gb|CF624220.1|CF624220

EST:     GGATGGCAATCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|50331336|gb|CO526462.1|CO526462

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|149100507|gb|EE186588.2|EE186588

EST:     GATGGCAGTCGACAATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GATGGCAGTCGAC-ATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|149017487|gb|EE045688.2|EE045688

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|89248861|gb|DY620647.1|DY620647

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|91049303|gb|EB159721.1|EB159721

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGGCGCCAAGCTCGGGAT
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGAT

EST: gi|148928188|gb|EE284684.2|EE284684

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|89758425|gb|DY687609.1|DY687609

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAA                         GGCCGCCAAGCTCG
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCG

EST: gi|40333814|gb|CK367884.1|CK367884

EST:     GGATGGCAATCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|148970791|gb|EE021543.2|EE021543

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|40335389|gb|CK369459.1|CK369459

EST:     GGATGGCAATCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

EST: gi|149109897|gb|EE293704.2|EE293704

EST:     GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAG                         GGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC
genomic: GGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGAC

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: 46 (upstream exon), 49 (downstream exon)
Score: 21

ATACAAGGGTTCTGGGGGAGGGCGATGACCCGTCTTCGCCAATCGGCCGTGGATGGCAGTCGACATTTCTCACTAAAGATAAAGCCGTTGCTGAGGAAAGgtagcagtag ... gcatgaacagGGCCGCCAAGCTCGGGATGAAGCTGGAATGGACCGGCGACGGCGTGAGGACGGTCATGGGGCCCATCCCGGCGGTGAAGTGGGACGAGAGCCGGGGGCGG

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 69

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 54