ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatggatatattcttgtactttttctccctatcatatctgatcttgtagtagtagttaacttcattcttctgtatgcag

Basic information

species	Zea mays
transcript	GRMZM2G074687_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g14270.3 (Oryza sativa), 5'ss of exon 3

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcc-tatggatatattcttgtactttttctccctatcatatctgatcttgtagtagtagt-taacttcattcttctgtatgcag
|||| ||||| ||||| |||||||||||||||||||| || ||||||||||| ||||||||||| |||||||| ||||| |||||||||||| | ||||||||    | |   | |||| | |  ||  ||||| || |  | ||     | ||| ||||  | ||||||  | ||| || ||||||
CTGTAAAGCATGAGCAAAAGCTTGACTGTGGTGGTGGATATGTCAAGTTGCTTGGTGGTGATGTTGACCAGAAGAAATTTGGTGGGGACACACCGTACAGgtaatgattttcttctattgtagctctgattctcacttt--tctcaagattagtactagttatctaacttggtacttttgaatgcag

upper sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA10G28890.1 (Glycine max), 5'ss of exon 3

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatggatatattcttgtactttttctccctatc-atatctgatcttgtagtagtagttaacttcattcttctgtatgcag-------------
|||| |||||||| ||||||||||||||||||||||| ||| | ||||||||  |||| ||||| || ||||| ||||| || ||||| ||  |||||||||    |||  ||    | |||   |  | |||  |    ||   ||   |||  || |||    |  | ||  ||    ||                 
CTGTTAAGCACGAACAGAAGCTTGACTGTGGTGGTGGCTACATGAAGTTGCTCAGTGGGGATGTTGATCAGAAGAAATTTGGCGGGGATACTCCTTACAGgtgatttatatatccccttttgatttgctgctctttcctgatgggtgcctttgatgttgtaaaacagctgatcttttgacatttgttgttctgttgcag

upper sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA20G23080.2 (Glycine max), 5'ss of exon 3

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatggatatattcttg------tactttttctc--------cctatcatatctgatcttgtagtagtagttaac-ttcattcttctgtatgcag
|||| ||||| || |||||||||||||| |||||||| ||| | ||||||||  |||||||||| || ||||| ||||| |||||||| ||  |||||||||    |||  ||    | |||      | || ||||          ||| |||||||  |         |    ||||| ||  || |||||| |||||
CTGTCAAGCATGAACAGAAGCTTGACTGCGGTGGTGGCTACATGAAGTTGCTCAGTGGTGATGTTGATCAGAAGAAATTTGGTGGGGATACTCCTTACAGgtgatttatatatccccttttgatttgttgctctttcctgatgggtgcctctcatatcgcaaaacacctgaccttttaacatttgttgttctgt-tgcag

upper sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT1G56340.1 (Arabidopsis thaliana), 5'ss of exon 3

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatggatatattcttgtactttttctccctatcatatctgatcttgtagtagtag--ttaacttcattcttctgtatgcag
|||| ||||| |||||||||||||||||||||||||| ||| | ||||||||  ||| |||||| |||||||  |||||||| || |||||  |||||||||          | | ||   ||   |||  |  | |  |  ||  |  ||  |  |  ||  ||| |||  || || | | |||||
CTGTCAAGCATGAGCAGAAGCTTGACTGTGGTGGTGGCTACATGAAGTTGCTAAGTGATGATGTTGACCAGACGAAATTCGGAGGAGACACTCCTTACAGgtg---------tgtttttcggttactttcatatcaa--acttcaaacattcaaacaccaggcttatctttctttttttatctgcag

upper sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT1G09210.1 (Arabidopsis thaliana), 5'ss of exon 3

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtag----cctatggatatattcttgtactttttctccctatcat------atctgatcttgtagtagtagttaac--ttcattcttctgtatgcag
| || ||||||||||| ||||||||||| |||||||| ||| | ||| | ||  |||||||||| ||||| || ||||| ||||| |||||| | ||||||||     |||||         ||  ||   | ||  ||||| ||      |  | |   | ||  | ||   | |  |    | || |   |||||
CAGTCAAGCACGAGCAAAAGCTTGACTGCGGTGGTGGCTACATGAAGCTACTAAGTGGTGATGTTGACCAAAAGAAATTTGGTGGAGACACACCATACAGgtacaaatcctatctcatctcactcttatcatctcaacctattatcaattaacatcaatgtttaaaaataacaacccatctgcttttttacctgcag

upper sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv14s0060g01290.t01 (Vitis vinifera), 5'ss of exon 3

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgt-agc-ctatggatatattcttgtactttttctccctatc-ata--tctgatcttgtagtagtagttaacttcattcttctgt-atgcag-----------
|||| || || || ||||||||||||||||||||||| ||| | ||||||||  ||||||| || || || || ||||| ||||| || ||  | ||||||| ||   |||   |   | ||  |  ||| || |  | || ||   ||  | ||| |  |     ||||  |  ||  | ||| ||  |            
CTGTTAAACATGAACAGAAGCTTGACTGTGGTGGTGGATACATGAAGTTGCTCAGTGGTGAGGTTGATCAAAAGAAATTTGGTGGTGATACCCCATACAGgtcagtgttatttttgcttactgtttgtttgtccctttgtctatgactccaaacttcttatcccttttaaagttgttgatttgttataaaacatgattgcag

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|148948737|gb|EC898659.2|EC898659

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|149008411|gb|EE040568.2|EE040568

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|58029459|gb|CX724886.1|CX724886

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|149014111|gb|EE043648.2|EE043648

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|31558809|gb|CD528021.1|CD528021

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGGTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|148935865|gb|EC879913.2|EC879913

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|149097674|gb|EE183578.2|EE183578

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|148959988|gb|EE153227.2|EE153227

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|149112807|gb|EE295617.2|EE295617

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|149011835|gb|EE042440.2|EE042440

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|149084306|gb|EE173743.2|EE173743

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|148935504|gb|EC879545.2|EC879545

EST:     CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: CTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

EST: gi|60672264|gb|DN475030.1|DN475030

EST:     GGGACACAACTTACAG                         CATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC
genomic: GGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACAC

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: 42 (upstream exon), 48 (downstream exon)
Score: 78

CTGTGAAGCACGAGCAGAAGCTTGACTGTGGTGGTGGTTACGTCAAGTTGCTGGGTGGTGATGTAGACCAGAAAAAATTCGGTGGGGACACAACTTACAGgtagcctatg ... ctgtatgcagCATTATGTTTGGACCAGATATCTGTGGGTACAGCACCAAGAAGGTTCACACTATCCTGACAAAGGATGGCAAGAACCACTTGATCAAGAAGGATGTGCCT

Block sizes: 42 (upstream exon), 48 (downstream exon)
Score: 223

Block sizes: 42 (upstream exon), 48 (downstream exon)
Score: 166