ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCACCAAGCTAAGCTCCAGCACAACCTCATGTACCTGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactgctaatgccagctcatcgtcggcttgcttggcccttgctacactcaaaagcgctttcgtcattagcgaaataagggttgcgtcgctcatctcacttggcatgtcatgtcatgtctgcag

Basic information

species	Zea mays
transcript	GRMZM2G180246_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G180246_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g52320.1 (Oryza sativa), 5'ss of exon 3

GCACCAAGCTAAGCTCCAGCACAACCTCATGTACCTGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgta--cgtactgctaatgccagctcatc-gtcggcttgcttggcccttgctacactcaaaagcgctttcgtcattagcgaaataagggttgcgtcgctcatctcacttggcatgtcatgtcatgtctgcag
| |||||||||||||||||||||| ||||||||||| ||||||||||| |||||||||||||| ||||| ||  |  | || ||||||   || |||||   |        |  ||||  ||  ||||   ||| |      |  || |   || ||| | |||        | ||| | |  |||   |    |                     
GAACCAAGCTAAGCTCCAGCACAATCTCATGTACCTCGCCGCCATCGCCGACAGCCAGCCGCCGCAGACGGCCGCCATGTCCCAGgtaattgtgctgctggcgatgatcagtgagtcgtgtttgttggtgtttgatttgaggatgagtgaagtcatcaatggcg--------gctgcattgtgcatgg-atgcag---------------------

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|71762507|gb|DR960444.1|DR960444

EST:     TGGCCGCCATCGTTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|24934883|gb|CA453101.1|CA453101

EST:     CAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: CAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|93015153|gb|EB640673.1|EB640673

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|31405519|gb|CD484251.1|CD484251

EST:     CCACTATCACAAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCA
genomic: CCACTATCAC-AGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCA

EST: gi|71417542|gb|DR804109.1|DR804109

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|24773987|gb|CA409241.1|CA409241

EST:     CCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: CCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|211135406|gb|FL464567.1|FL464567

EST:     TGGCNGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|31558279|gb|CD527491.1|CD527491

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         CACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|14245547|gb|BG874129.1|BG874129

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|71760558|gb|DR958495.1|DR958495

EST:     TGCCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|78074772|gb|DV503206.1|DV503206

EST:     CAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: CAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|71756298|gb|DR954235.1|DR954235

EST:     AGACCGCGCCACTATCACAG                         TACCCGTCCAACNTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: AGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|76291757|gb|DV031325.1|DV031325

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|50337867|gb|CO532993.1|CO532993

EST:     GCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: GCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|31405520|gb|CD484252.1|CD484252

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|60400838|gb|DN233645.1|DN233645

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|60394771|gb|DN227641.1|DN227641

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|74240921|gb|DT648835.1|DT648835

EST:     GGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: GGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|24773768|gb|CA409022.1|CA409022

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|31558313|gb|CD527525.1|CD527525

EST:     TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: TGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

EST: gi|24773855|gb|CA409109.1|CA409109

EST:     CTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAG                         TACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG
genomic: CTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAG

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: 1896

GCACCAAGCTAAGCTCCAGCACAACCTCATGTACCTGGCCGCCATCGCTGACAGCCAGCCGCCACAGACCGCGCCACTATCACAGgtacgtactg ... atgtctgcagTACCCGTCCAACCTGATGATGCAGCCGGGCCCTCGGTACATGCCACCGCAGTCCGGGCAGATGATGAACCCGCAGTCGCTGATGGCGGCGCGGTCCTCCA

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 21

Block sizes: 41 (upstream exon), 44 (downstream exon)
Score: 3