ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGGCCGCCTGCTCGGCCACGGCCAGTTCGGCTACACCTTCGCCGCCACCGACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgccgcctgcccccccgcaccccaagccgccgcgctgtccctgtctctgtctctcctactagtagtagtagctggtggtgattccgagcgcgtc...

Basic information

species	Zea mays
transcript	GRMZM2G157068_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G053868_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g03410.1 (Oryza sativa), 5'ss of exon 1

CGGCCGCCTGCTCGGCCACGGCCAGTTCGGCTACACCTTCGCCGCCACCGACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtga-gctgccgcctgcccccccgcaccccaagccgccgcgctgtccctgtctctgtctctcctactagtagtagtagctggtggtgattccgagcgcgtc----
|||  | ||||||||||||||||||||||||||||||||||||||||||||||| | ||| || |||||||| |||||||||||||||||||||||||||||    ||    |     |  | | ||    |     |||   |||  |||   |  ||    |       | | | |   ||     ||| ||  | |      
CGGGAGGCTGCTCGGCCACGGCCAGTTCGGCTACACCTTCGCCGCCACCGACCGGGCCTCCGGTGACCGCGTCGCCGTCAAGCGCATCGACAAGGCCAAGgtactactaatactattactactggactttga-----cgcttggtctgtgtgattcgctgcggtttcgcgggaattcgggagttccatttcggattgagctagtg

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|211195521|gb|FL100645.1|FL100645

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

EST: gi|211195523|gb|FL100647.1|FL100647

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

EST: gi|149082402|gb|EE171589.2|EE171589

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

EST: gi|211195519|gb|FL100643.1|FL100643

EST:     CCGCGGGCTCTGGGGACCGCGTTGCCGTCNAGCGCATCCACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGGAG-ATGTGAAAAGAGAAGTGAAGATTCT
genomic: CCGCGG-CTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGG-AGGATGTGAAAAGAGAAGTGAAGATTCT

EST: gi|211195530|gb|FL100654.1|FL100654

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

EST: gi|211195524|gb|FL100648.1|FL100648

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

EST: gi|211320124|gb|FL100655.1|FL100655

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

EST: gi|211195522|gb|FL100646.1|FL100646

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

EST: gi|211195528|gb|FL100652.1|FL100652

EST:     ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAG                         ATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT
genomic: ACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTT

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: 45 (upstream exon), 45 (downstream exon)
Score: 15

CGGCCGCCTGCTCGGCCACGGCCAGTTCGGCTACACCTTCGCCGCCACCGACCGCGGCTCTGGGGACCGCGTTGCCGTCAAGCGCATCGACAAGGCCAAGgtgagctgcc ... tatataacagATGACCCGCCCTGTTGCTGTGGAGGATGTGAAAAGAGAAGTGAAGATTCTTAAAGCACTTAAAGGACATCAGAATATTGTTCACTTCTACAATGCATTTG

Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 57

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 124