ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgttaatttaatcacatcacaaactactggcag

Basic information

species	Zea mays
transcript	GRMZM2G006765_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g06390.5 (Oryza sativa), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgtt--cagtaacat---tgttctgttaatttaatcacat-------------cacaaactactggcag
            |  |   | || |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| || || ||  |||    |  ||| |  |  |||| |      ||||    | ||||||||  ||               | || | |||||||
-----------AACCAGTAGGAGGAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTGTGTGACAATGGAACTGGCATGGTCAAGgttcgtggtgctcattcgtagtatttctttgtagcagttatccccatgtttatgtgatttaatcgtatactttacttttcttgcgaattgctggcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCA---AATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgtt--cagtaacat---tgttctgttaatttaatcacat-------------cacaaactactggcag
         | ||||| | |||| |   ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| || || ||  |||    |  ||| |  |  |||| |      ||||    | ||||||||  ||               | || | |||||||
------GAATTCAGAACCAGTAGGAGGAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTGTGTGACAATGGAACTGGCATGGTCAAGgttcgtggtgctcattcgtagtatttctttgtagcagttatccccatgtttatgtgatttaatcgtatactttacttttcttgcgaattgctggcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G39380.2 (Glycine max), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgtt--aatttaatcacatcacaaactactggcag----------------
                |  |||  | |||||||| |  ||||| || || |||||||| ||||||||||||||||| ||||| |||||| ||| ||     |  |  |   | ||||  | |  |||   |  ||     |||  | |    || |  || |   |                 
------------TAGTTTGGTAAAAGATGGCTGATGCTGAGGATATTCAACCCCTTGTCTGTGACAATGGAACTGGAATGGTGAAGgttagtactttgcagtttc-ttctgttatgtgtaattgcatctattagtctcggtttcgttatcaaacgatttatttctataatgatctgtgtacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G32220.1 (Glycine max), 5'ss of exon 1

---------------TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgt---tctgttaat-ttaatcacatcac-aaactactggcag-------------
               | |  || || |||  | ||||  | ||||| || |  ||||| || || |||||||||||||||||||||||||| ||||||||||||   ||| |||     |  || ||  ||||   |    ||||   |||| ||   || |   ||| ||  ||    ||                 
TATTTCATGGCACCCTATGCTTTTTGCAGG-TTTGTAAAAGATGGCCGATGCTGAGGATATTCAACCCCTTGTTTGTGACAATGGAACTGGAATGGTCAAGgtt---agtacttagcggctttgttttttgtttcatgtgcttgtgcatctgctagccttgagttcataactgaatctttgattttaatatggaacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G15480.1 (Glycine max), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttg----ttcacgctgcttcatgttcagtaaca----ttgttctgttaatttaatcacatcacaaactactgg-cag
                | ||||  | ||||| || | |||||| || || ||||||||||| |||||||||||||| |||||||||||| ||| ||| ||    ||     || | ||||| ||    ||    |||   |  ||| | ||| |  |     | ||  |  |||
---------------GTTTGTAAAAGATGGCAGATGCCGAGGATATTCAACCCCTTGTTTGCGACAATGGAACTGGAATGGTCAAGgttagtacttcgtggatttttgttttgttgcatgtgcatatgcaagtcttgagttcataagtgaataatttattttaatatggaacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G39380.1 (Glycine max), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgtt--aatttaatcacatcacaaactactggcag----------------
                |  |||  | |||||||| |  ||||| || || |||||||| ||||||||||||||||| ||||| |||||| ||| ||     |  |  |   | ||||  | |  |||   |  ||     |||  | |    || |  || |   |                 
---------------TTTGGTAAAAGATGGCTGATGCTGAGGATATTCAACCCCTTGTCTGTGACAATGGAACTGGAATGGTGAAGgttagtactttgcagtttc-ttctgttatgtgtaattgcatctattagtctcggtttcgttatcaaacgatttatttctataatgatctgtgtacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G15520.2 (Glycine max), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt--------cttgttcacgctgcttcatgt--------tcagtaacattgttctgttaatttaatcacatcacaaactactggcag
                |  |||  |||||||||| |  ||||| || || |||||||||||||||||||||||||| ||||| |||||| ||| ||        ||||||   |    | ||| |        |  ||  |||| ||   | |||||| | | || |  | ||     |||
---------------TTTGGTAAAAAATGGCTGATGCTGAGGATATTCAACCCCTTGTTTGTGACAATGGAACTGGAATGGTGAAGgttagtactttgcagtttcttgttagtgtaattgcatctatttagtcttggtttcattattgc-tcaatttatttaaatgatcatctgtgtacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G32220.2 (Glycine max), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgt---tctgttaat-ttaatcacatcac-aaactactggcag-------------
                | ||||  | ||||| || |  ||||| || || |||||||||||||||||||||||||| ||||||||||||   ||| |||     |  || ||  ||||   |    ||||   |||| ||   || |   ||| ||  ||    ||                 
---------------GTTTGTAAAAGATGGCCGATGCTGAGGATATTCAACCCCTTGTTTGTGACAATGGAACTGGAATGGTCAAGgtt---agtacttagcggctttgttttttgtttcatgtgcttgtgcatctgctagccttgagttcataactgaatctttgattttaatatggaacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgttaatttaatcacatcacaaactactggcag-----------------------------------------
                  | ||  |||||||||| |  |||||||| || || ||||||  ||| ||||||||||| ||||||||||||   ||  | ||||    |   || |||     |    |||| || || |  ||  ||  || |    | || ||                                           
----------------GTTTTAAAAAATGGCTGATGCTGAGGACATTCAACCTCTTGTTGTTGATAATGGAACTGGAATGGTCAAGgtt---agaacatgttttttccaattgatgagtgct--tcttgtgctattgaagtagacagttcgctctgtgcttgcttaaatatgatattaatatatattttttctccaatgtttgcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 2

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgt---ttgtagttcttgttca--cgctgcttcatgttcagtaacattgttctgttaatttaa--tcac--atcacaaact------actggcag
                    |   ||||||| || || ||||| || ||||| ||||| ||||||||||||||||| ||||| |||||   ||  | |  || || |    |||  |  |  | |    | ||||| |     | |||    ||  ||||  |  |      | |  |||
--------------------TGAAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAGgtgagttagactgtttatttagatactgtatggttctaaccttctttgttgtacatgtgtaagactactgatcatgatttttgtatattaacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 5'ss of exon 3

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgttaatt--taatcacatcacaaactactggcag--------------------------
                |    |    ||||| ||    || || ||||||||||| || ||||||||||||||||| ||||| ||||| ||| |||  | |      ||||| || | |||     ||||  ||||   |  |  ||| ||    || |      ||                          
---------------GTAATAAAAGGATGGCCGATACTGAAGATATCCAGCCCCTCGTCTGTGACAATGGAACTGGAATGGTGAAGgtctgttgtttctttct----tgcttgatatgcagatttgttgtgttgtttgctgctcctcaaatgctcaatttgaataagctttccatgttatgctttatatgcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgttaatttaatcacatcacaaactactggcag---------------------
              |   | ||| | ||||| || | |||||| |||||||| ||||| ||||||||||||||||| |||||||||||||||   |  |  | |      |  |||       |  ||  | | |  | ||  | | || |    ||   || |                      
--------------AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 3

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgt----ttgtagttcttgttcacgctgcttcatgttcagtaacattgttctgttaatttaatcac------atcacaaactactggcag-----------
           | | ||   ||  ||||||||||||| |||||  | |||||| | || || |||||||||||||| |||||||||||    |     ||||    | |   | || |  ||    ||| | ||||  |  ||| ||  |       |||   | || |||               
---------GTCGGTAT---TAAGAAATGGCTGACGGTGAGGAAGTACAGCCCTTGGTGTGCGACAATGGAACTGGAATGGTCAAGgtgaggtcactcttctaaaacccagagattaacttttccgaacttggttcattggattcaaggattctataatcttgagcttctgctgaaaaatattcta

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|211179264|gb|FL010862.1|FL010862

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCTAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|32907965|gb|CF012778.1|CF012778

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|32868978|gb|CF008660.1|CF008660

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|211179259|gb|FL010857.1|FL010857

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|78117775|gb|DV536162.1|DV536162

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|71315363|gb|DR794285.1|DR794285

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|6695747|gb|AW288825.1|AW288825

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|211179261|gb|FL010859.1|FL010859

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|211179263|gb|FL010861.1|FL010861

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGKT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|211179260|gb|FL010858.1|FL010858

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|12045697|gb|BF727836.1|BF727836

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAATCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|101383600|gb|EB813855.1|EB813855

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|22546788|gb|BU099099.1|BU099099

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGGTTTCCCAAGCATTGGT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|32865168|gb|CF004850.1|CF004850

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|32906739|gb|CF011552.1|CF011552

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

EST: gi|78179272|gb|DV549645.1|DV549645

EST:     GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT
genomic: GCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTT

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: 49 (upstream exon), 49 (downstream exon)
Score: 648

TGTTTTTGTTCCAGAATCTGTAGCAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctactggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTTGGACGCCCACGTCACACTGGCGTGATGGTTGGCATGGGGCAGAAGGATG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 295

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 51