ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAACAAAAAATGGAAGGAGGGTTTTTATGTTACTGCTATGGCCACAGCAGGCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgacgtgctcagaaggctggcctttgctttgaatcgtctactatccaggaaaaaacatatcgacatgccttgatattgctgactctcaagaacatagcttcaagaaaaacatatgctgaaaacagcattgttaaacttggttcttatttttaatgtttttggttttag

Basic information

species	Zea mays
transcript	GRMZM2G116151_T03
intron #	14
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G116151_T03 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os05g11140.2 (Oryza sativa), 5'ss of exon 14

AAACAAAAAATGGAAGGAGGGTTTTTATGTTACTGCTATGGCCACAGCAGGCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgt-tgacgtgctcagaaggctggcctttgctttgaatcgtctactatccaggaaaaaacatatcgacatgccttgatattgctgactctcaagaacatagcttcaagaaaaacat-atgctgaaaacagcattgtta--aacttggttcttatttttaatg------tttttggttttag
|||||| || |||||||||||||| ||||| |||||||||||||| ||||| || || |||||||||||||||||||||||| |||||||| | |  ||||||  | || | | || |  ||||       |    | || | | ||              ||| ||  |  ||| ||    ||    |   |||| |  |||||||      ||   | ||     | |||  |  | ||  || |  |||| |    || |        ||||   || |||
AAACAAGAAGTGGAAGGAGGGTTTCTATGTCACTGCTATGGCCACTGCAGGAAGCCGGTGGGCAGTGGTCATGTCCCGGAATGCTGGCTTTACAGATCAGgtatttctgtctttctaatcaggccttttactaacctaaaacatgtat-------------acacatgtatgtgctttccctttctgaatcttcaataggatagcttaggttcaacagtgatatgatatacaataggggtagaaattcagttccttcggttgacaacacaattttcttttgtag

upper sequence: GRMZM2G116151_T03 (Zea mays), 5'ss of exon 14
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 14

AAACAAAAAATGGAAGGAGGGTTTTTATGTTACTGCTATGGCCACAGCAGGCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgacgtgctcagaaggctggcctttgctttgaatcgtctactatccaggaaaaaacatatcgacatgccttgatattgctgactctcaagaacatagcttcaagaaaaacatatgctgaaaacagcattgttaaacttggttcttatttttaatgtttttggttttag
||| ||||||||||  |||||||| |||||||||||||||||||| ||||| ||| | |||||  | |||||||| ||   | |||| ||||| |  ||||| | ||   ||| |  | |  ||     |   ||       | |    |     | ||    | ||    ||  ||  || |  |                                                                                        
AAATAAAAAATGGAGAGAGGGTTTCTATGTTACTGCTATGGCCACTGCAGGAAGTAGATGGGCGATTGTCATGTCTCGTGGTGCTGGATTTTCTGATCAGgttcttt--tgtgttttggaatcta--tctccattcatgctatttgtggtagcaaagaaggtgtttctgattgattttttacttgtag--------------------------------------------------------------------------------------

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|31357223|gb|CD441580.1|CD441580

EST:     GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAG                         GTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG
genomic: GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG

EST: gi|89248581|gb|DY620367.1|DY620367

EST:     GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAG                         GTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG
genomic: GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG

EST: gi|30088200|gb|CB886405.1|CB886405

EST:     GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAG                         GTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG
genomic: GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG

EST: gi|32165081|gb|CD670399.1|CD670399

EST:     GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAG                         GTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG
genomic: GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG

EST: gi|30031897|gb|CB833748.1|CB833748

EST:     CAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTTCGGCGCAG                         GTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG
genomic: CAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGC-TTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG

EST: gi|71756720|gb|DR954657.1|DR954657

EST:     GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAG                         GTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG
genomic: GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG

EST: gi|67013328|gb|CO442077.1|CO442077

EST:     GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAA                         GTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG
genomic: GCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGG

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), 46 (downstream exon)
Score: 103

AAACAAAAAATGGAAGGAGGGTTTTTATGTTACTGCTATGGCCACAGCAGGCAGTCGTTGGGCAGTGGTCATGTCCCGGAATTCTGGCTTTTCGGCGCAGgtacgttgac ... ttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGGGATAATGGATTTCGCATCACGGCTACTGCAGCTACATGGGATCAGGCAG

Block sizes: 44 (upstream exon), 46 (downstream exon)
Score: 72

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 65