ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcctactttgctcatgcattcaccaca...

Basic information

species	Oryza sativa
transcript	LOC_Os07g41740.1
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G038066_T02 (Zea mays), 5'ss of exon 4

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgt--------atctcatccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcctactttgctcatgcattcaccaca
||||||| ||| ||||||||||||| |  |||||||||||||||||||||||||||||||||||||| |||||||| ||||| ||  |||||||||||||||        ||   ||| ||     |||| |||| ||      |   | |  | | | | ||     |  ||| |  | | | | | |      || |         
AAAAAGAGTGGTTGTCCATGGTTGCTGCACACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTCGGTGCTCGATTCGGTTTCAATAAAAATGACAGgttagttttcattctatctttatggaatctgtactgcttgcctttctcttttatccgtgaagttttcctactttatgcaaacctttcctacaggctgtaa--------

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA14G11400.3 (Glycine max), 5'ss of exon 2

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcc-tactttgctcatg--cattcaccaca
|||| || ||||||||  ||||||| || ||||||||||| ||||| ||| |||| || ||||| ||||||||| |||| |||||||| ||   ||| |||||  |  |  ||| | | |||  | |     ||   | ||| | || ||  | |   || | ||   | |      || |||| |  ||  || |      |
AAAAGGACTGGCTGTCTTTGGTTGCTGTACACAGTGATGCTTGGTTGCTTGCTGTGGCTTTTTATTTTGGTGCTAGGTTTGGATTTGACAAGGCTGATAGgtacatatt--ttcttttctcttcaatatgtatatggactta-gctgattattattttttctcttaagtgatgcatgtattttgattttgggcaatattgtta

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA17G34250.1 (Glycine max), 5'ss of exon 1

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcctac-tttgctcatgcatt-caccaca--
 ||| || ||||||||  ||||||| |||||||||||||| ||||| ||| |||| || ||||| ||||||||| |||| |||||||| ||   ||||||||| || ||  | | |   ||||| |      ||  | | | |      | ||     ||| | ||   |    | | | |||| || ||      |       
-AAAGGACTGGCTGTCTTTGGTTGCTGTGCACAGTGATGCTTGGTTGCTTGCTGTGGCTTTTTATTTTGGTGCTAGGTTTGGATTTGACAAGGCTGACAGgtacct-attttcctt---tctattcaatatgtatatgggtttaactgattattattttttctcttaaatgatgcatgcatttgatcttgggcgatattgttaa

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA13G16740.1 (Glycine max), 5'ss of exon 3

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatc-tcatccttcctatatctatacttc--tcttacctagttatggtgcttcatgt---gccttttttttttttagatcctactttgctcatgcattcaccaca
| || || ||||||||  ||||||| || ||||||||||||||||||||| | || || || |||||||| || || || || |||||||||  ||||||||||  |  |  || |||  ||| || |    | ||  || |  || |  ||  | ||    |       |||||  ||| |  ||||  |  | |||| ||    
ATAAGGACTGGCTGTCTTTGGTTGCCGTTCACAGTGATGCATGGTTACTTGCAGTGGCTTTCTACTTTGGGGCACGATTTGGTTTTGATAAAGCTGACAGgtatgattctgttttctaactctttattgtgtttttttcttgcaattgatctctaggttggacagggaaatttttcggatgc--ctttcgtttttcatttac----

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA04G05750.1 (Glycine max), 5'ss of exon 1

------------------AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcctactttgctcatgcattcaccaca
                  | || || ||||| ||| |||||||  |||||||||||||||||||||||||||| || |  |  ||||||||| | || || ||||||||   | | || || || ||  |||||     | | | |   |   |  ||||   | |    |     |||||    |||| ||       |     |            
ACAGAGACGGGAAGCAAAATAAGGACTGGCTATCCTTGGTTGCTATGCACAGTGATGCATGGTTACTTTCTGTGGCTTCGTTTTTTGGTGCTAGATTTGGgtttgataaggctaatagttaactgat--ttcct----ttttgccttgatagacacgttacactacaaactagttttttttcccctttaaatggggggatatgttt------------

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT5G20510.1 (Arabidopsis thaliana), 5'ss of exon 3

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatc--tcatccttccta------tatctatacttctcttacctagt-tatggtgcttcatgtgccttttttttttttagatcctactt-tgctcatg-cattcaccaca---------------------------------
||| | | ||||| ||  | ||||| || ||||||||||| ||||||||||||||  | |||||||||||| |  | || || || |||| |  |||||||||||  || | ||| ||       | | | | ||  ||| |||| || |  | || || || |    | |  |   ||   | | | |  |  |||||  ||      ||                                 
AAAGAAACTGGCTTTCTCTCGTTGCTGTCCACAGTGATGCGTGGTTACTTTCTGTGTCTTTTTACTTTGGTTCAAGATTTGGTTTCGATAGAGCTGACAGgtatcattctttctttcttggttgctgtgttttctcttctaacctggtgttcgttgtttaatatcttctctgctcaattctctaccattaattatcatgatatctgaagcatttccatactaacccgtacacttacaaattcag

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv09s0002g01600.t01 (Vitis vinifera), 5'ss of exon 3

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcctactttgctcatgcattcaccaca-----
||||||| ||| | ||  | ||||| || || |||||||||||||| ||| ||||||| || || ||||||||  | || ||||||||||||  |||||||| | ||||   |||| |   | | |||  |||   || | ||  |||| || | |  |||   ||||| || |  || |        |    ||    |     
AAAAAGACTGGTTATCTTTAGTTGCTGTCCATAGTGATGCATGGTTGCTTGCTGTTGCCTTCTATTTTGGTGCCAGATTTGGATTTGATAAAGCTGACAGgtttttcatttctccttttctttttctttccttcgata-taat--tgctgcaagag--tttaggtttttaaggttttaatgaagaagggatagcatgggaacaaa

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv11s0016g01500.t01 (Vitis vinifera), 5'ss of exon 3

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcctactttgctcat--gcattcaccaca
|||| || ||| ||||  ||||||| |||||||||||||| ||||||||| |||| || || || ||||||||  |||| || |||||||||  |||||||||| || | |||   | ||    || ||| |     ||   |  | | | |  | | | |||       | |     |    ||  |  || || | |   
AAAAGGACTGGTTGTCTCTGGTTGCTGTGCACAGTGATGCTTGGTTACTTGCTGTGGCCTTCTATTTTGGTGCCAGGTTTGGTTTTGATAAAGCTGACAGgtatatctttcttta-acattctaacctctgtcctagaggcctaattcctgagtttcatctttgcaccaaaaacttctcccaactttttcgccttgatcgt-

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0008g01670.t01 (Vitis vinifera), 5'ss of exon 3

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtat-ctcatccttcctatatctatacttctcttacctagttatggtgcttca-tgtgccttttttttttttagatcctactttgctcatgcattcaccaca
|||| |||||| | ||  |||| || || ||||||||||||||||||||| |||| || ||||| ||||||||| | || ||||||||||||  |||||||||| ||| || || |  ||   ||  | || |||  |     ||   |   | || ||||       | |||  ||||| |||     |   |      | 
AAAAGGATTGGTTATCTTTGGTCGCTGTCCACAGTGATGCATGGTTACTTGCTGTGGCCTTTTATTTTGGTGCTAGATTTGGATTTGATAAAGCTGACAGgtatgctcttctttaccctagaaatgatgct-ttatttgaccctgtaacacaactgagcctggagggatattatttcctatttttgatcttagtggtatgc-

upper sequence: LOC_Os07g41740.1 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S371_53V6.1 (Physcomitrella patens), 5'ss of exon 3

------AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatct-catccttcctatatctatacttctcttacctagttatggtgcttcatgtgccttttttttttttagatcctactttgctcatgcattcaccaca
        ||||||||| ||||| ||||||| |||||||||||||| ||| | ||  ||||||| ||||| | |||||| ||||| | |   ||   | | | ||| |||||  | |  | | |   || |  |||| |    || |    |||  |  |     |     || ||  || | ||||| || ||   || |      
TGCAGCGTAAAGATTGGTTGTCCTTGGTTGCTGTGCACAGTGATGCCTGGCTGCTCGCTGTTGCTTTTTATTATGGTGCCCGGTTTG-ACAAGAACGAGAGgtcagctatctgtaactgttcgaacgctctttttctgtc-tttactctacgtgaatggtcgaagtcagggttgttaggagcttacttagcccacctatact-----

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|66916026|gb|CX102874.1|CX102874

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|58673430|gb|CK062116.1|CK062116

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAG
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAG

EST: gi|58593299|gb|CF991607.1|CF991607

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|58679144|gb|CK067831.1|CK067831

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATG
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATG

EST: gi|58681410|gb|CK070097.1|CK070097

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|58653321|gb|CK042001.1|CK042001

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|38479958|gb|CF964047.1|CF964047

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|58657324|gb|CK046004.1|CK046004

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|58600404|gb|CK010932.1|CK010932

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|58682916|gb|CK071603.1|CK071603

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

EST: gi|58683778|gb|CK072465.1|CK072465

EST:     TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAG                         GAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT
genomic: TCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGT

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 1 RNA-Seqlibrary.

Block sizes: 72 (upstream exon), 73 (downstream exon)
Score: 28

AAAAAGATTGGCTGTCCATGGTTGCAGTGCACAGTGATGCATGGTTACTTTCTGTTGCATTTTACTTTGGTGCTCGGTTCGGATTTGATAAAAATGACAGgtatctcatc ... tgttgtgcagGAAGCGCCTGTTTGGTATGATTAATGATCTTCCCACGATTTTTGAAGTTGTTAGTGGGAAGAGTAAAGCCAAGCCACCGAGTGCTAATAACCACAGCAAT