ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAGAGGACGATCAATCCGCAACGCTTGACCAGGTCCTAAACGACACGACGAGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttttttttgtttcgctgcccatcacatgcatagccaagaccaaggacaggacgtgcgtgagctactacaatatgacgaccgacacaagcaggcactaacgagtggttttgactgcag

Basic information

species	Zea mays
transcript	GRMZM2G044092_T01
intron #	12
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G044092_T01 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os01g67220.2 (Oryza sativa), 5'ss of exon 12

AAGAGGACGATCAATCCGCAACGCTTGACCAGGTCCTAAACGACACGACGAGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttttttttgtttcgctgcccatcacatgcatagccaagaccaaggacaggacgtgcgtgagctactacaatatgacgaccgacacaagcaggcactaacgagtggttttgactgcag
| || || |||||||| |||||||||||||| ||| | || || ||||||||||| |||||||||||||| ||||||   |||||||| ||||| ||||||| ||  ||  ||||| || ||||   | |||  |  ||        |    | |   |       | ||| | |||      |   ||  ||                               
AGGAAGATGATCAATCGGCAACGCTTGACCAAGTCTTGAATGATACGACGAGGGTTGGTTACTTCAAAGGATACCTCGCGTCAGTTGCACAAGCAATCAAgttag--ttgattttgctt-gctgtttaccacgcgtctaagtgttttctgctaaaaatc-------aactaatgcaactaactgtatgatgcag------------------------------

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|76282020|gb|DV021588.1|DV021588

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|211033638|gb|FL455181.1|FL455181

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|5871791|gb|AW018262.1|AW018262

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|149042712|gb|EE047227.2|EE047227

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|71312816|gb|DR792938.1|DR792938

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|74243619|gb|DT651533.1|DT651533

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGGGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|67011065|gb|CO439814.1|CO439814

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|45568386|gb|CK986040.1|CK986040

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|5296321|gb|AI783091.1|AI783091

EST:     GGGTCGGTTACTTCAAAGGGTACCTCAATTCATGT-GCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: GGGTCGGTTACTTCAAAGGGTACCTCAATTCA-GTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|78022703|gb|DV491090.1|DV491090

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

EST: gi|6056670|gb|AW091075.1|AW091075

EST:     AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAA                         GGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT
genomic: AGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTT

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: 65

AAGAGGACGATCAATCCGCAACGCTTGACCAGGTCCTAAACGACACGACGAGGGTCGGTTACTTCAAAGGGTACCTCAATTCAGTTGCGCAAGCGATCAAgtaagccttt ... ttgactgcagGGACGGAGCTGATGTCCGCGGGTACTTTGCGTGGTCGTTCCTGGACAACTTCGAGTGGGCAATGGGCTACACCAAGAGGTTCGGCATAGTCTACGTGGAC

Block sizes: 48 (upstream exon), 43 (downstream exon)
Score: 63

Block sizes: 48 (upstream exon), 37 (downstream exon)
Score: 49