ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCAGCATCCATATCGGGCAGGCAGGCATCCAGGTAGGGAATTCTTGCTGGGAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccctttccattccaactcatcctttccttgagaattatgtcagattttgttctgtacttctctctgagatgattattccagttccagctcaga...

Basic information

species	Zea mays
transcript	GRMZM2G051782_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G051782_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os03g11970.1 (Oryza sativa), 5'ss of exon 1

TCAGCATCCATATCGGGCAGGCAGGCATCCAGGTAGGGAATTCTTGCTGGGAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccctttcca-ttccaactcatcc-tttccttgagaattatgtcagattttgttctgtacttctct----ctgagatgattattccagttccagctcaga
| |||||||| || |||||||| ||||||||||| ||||||||||||||||| || |||||||||||||| || |||||||| |||||||||||||||||||    | |  | ||| |||   ||| ||    ||  |     |  | ||  | ||  || |||     |||     |  ||||||  ||     ||| | |    
TAAGCATCCACATAGGGCAGGCGGGCATCCAGGTGGGGAATTCTTGCTGGGAACTATACTGCCTCGAGCATGGCATCCAGCCGGACGGCCTCATGCCCAGgttcttctcgatcccaattcttgctcgtctgcatctcttgctgtcttttcctacttaattttgtgaaattctgatattcggatgatggttttg--tcctgtt----

upper sequence: GRMZM2G051782_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S215_51V6.1 (Physcomitrella patens), 5'ss of exon 1

TCAGCATCCATATCGGGCAGGCAGGCATCCAGGTAGGGAATTCTTGCTGGGAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccctt-----tccattccaactcatcctttccttgagaattatgtcagattttgttctgtacttctctctgagatgattattccagttccagctcaga
|||| |||||||| || ||||| ||||| ||||| || ||| | |||||||||||||||||||| |||||||| || ||||| || || | |||||| ||||  | |   ||     |    |  |  |       |  | |  | ||  |   | ||| ||  |||   | ||   |    ||        |     ||     
TCAGTATCCATATAGGTCAGGCCGGCATTCAGGTCGGAAATGCCTGCTGGGAGCTCTACTGCCTGGAGCACGGCATTCAGCCCGATGGTCGCATGCCAAGgtacgtcggtttgggcgtgggatggagatgcctgcgttttcgtcattttcggtggttttggtcttgttgctttcggagcagggaccgcggaggagaatgc-----

upper sequence: GRMZM2G051782_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ23680 (Selaginella moellendorffii), 5'ss of exon 1

TCAGCATCCATATCGGGCAGGCAGGCATCCAGGTAGGGAATTCTTGCTGGGAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtg-aggcccctttccattccaactcatcctttccttgagaattatgtcagattttgttctgtacttctctctgagatgattattccagttccagctcaga
      | ||  ||||||||||||| |||||| |||||||||| ||||||||||||| |||||| |||||||| ||||| ||  | ||      |  |    | | |          |   |  ||  ||  |   | | | ||      ||  |  | ||   ||||                                 
------TACACGTCGGGCAGGCAGGAATCCAGCTAGGGAATTCGTGCTGGGAGCTCTTCTGCCTGGAGCACGGCATCCAACCGAATGGAAAGGCGATCGATCGCAAgtaagcgcgtgtcttagatcccccgattgctcaaagtttccctcgaaatcttccttctcttccag------------------------------

upper sequence: GRMZM2G051782_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ09935 (Selaginella moellendorffii), 5'ss of exon 1

TCAGCATCCATATCGGGCAGGCAGGCATCCAGGTAGGGAATTCTTGCTGGGAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtg-aggcccctttccattccaactcatcctttccttgagaattatgtcagattttgttctgtacttctctctgagatgattattccagttccagctcaga
      | ||  ||||||||||||| |||||| |||||||||| ||||||||||||| |||||| |||||||| || || ||  | ||      |  |    | | |          |   ||  |  |  || ||  |   |    ||  | | |      | |||||||   ||                         
------TACACGTCGGGCAGGCAGGAATCCAGCTAGGGAATTCGTGCTGGGAGCTCTTCTGCCTGGAGCACGGCATTCAACCCAATGGAAAGGCGATCGATCGCAAgtaagcgcgtgtcttaatcccccgattgctcaaagttcccctcgaaatct------tccttctcttccag-------------------------

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|211542703|gb|FL070761.1|FL070761

EST:     GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAG                         TGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTT
genomic: GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccc ... tcgcttgcagTGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTT

EST: gi|211542702|gb|FL070760.1|FL070760

EST:     GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAG                         TGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTTCAGTGA
genomic: GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccc ... tcgcttgcagTGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTTCAGTGA

EST: gi|211542706|gb|FL070764.1|FL070764

EST:     GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAG                         TGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCNTTCAGTG
genomic: GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccc ... tcgcttgcagTGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTC-TTCAGTG

EST: gi|211542705|gb|FL070763.1|FL070763

EST:     GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAG                         TGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTTCAGTGA
genomic: GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccc ... tcgcttgcagTGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTTCAGTGA

EST: gi|211542701|gb|FL070759.1|FL070759

EST:     GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAG                         TGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTTCAGTGA
genomic: GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccc ... tcgcttgcagTGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTTCAGTGA

EST: gi|211542704|gb|FL070762.1|FL070762

EST:     GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAG                         TGACACCTCTGTCGGGATC
genomic: GAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccc ... tcgcttgcagTGACACCTCTGTCGGGATC

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: 39 (upstream exon), 49 (downstream exon)
Score: 7

TCAGCATCCATATCGGGCAGGCAGGCATCCAGGTAGGGAATTCTTGCTGGGAGCTCTACTGCCTCGAGCACGGTATCCAGCCTGACGGCCTCATGCCCAGgtgaggcccc ... tcgcttgcagTGACACCTCTGTCGGGATCGCGAGGGATGCGTTCAACACGTTCTTCAGTGAAACGGGCGCAGGGAAGCACGTTCCAAGGGCCCTGTTTGTCGACTTGGAG

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 315

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 271