ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CAACAGTGACTCCGAGAAGACGAACAACACCATCCTCCAGATCAACCGCATCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcctggctcccctctcccccttccctcgccaatcgctcagatcccagggaccgacgcttgcgtgccgcttctccagatccctaaatctcacgccatttcttgaacccctcaacgcag

Basic information

species	Zea mays
transcript	GRMZM2G162292_T02
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G162292_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os10g38970.1 (Oryza sativa), 5'ss of exon 1

CAACAGTGACTCCGAGAAGACGAACAACACCATCCTCCAGATCAACCGCATCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcctggctcccctctcccccttccctcgccaatcgctcagatcccagggaccgacgcttgcgtgcc--gcttctccagatccc--taaatctcac--gccatttcttgaacccctcaacgcag-----------------
 ||||| ||||| |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||      ||  ||  ||  |     |  |||| |  |   || ||  | |    |     |  | || | ||   || ||||||||| |  | | | |     |   | ||| |  |   |     | |                 
GAACAGCGACTCGGAGAAGACGAACAACACCATCCTCCAGATCAACCGCATCTTCAAGGACCGGATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgttcgcctccgcgcggcctcccagatcccccctagtgaggggcgcatttgcttttgcttcgccttcgccttccttcctcctccagatctcgctgattttggttggttctctctcgcccttttttgttcggatcccggaggtgcgcag

upper sequence: GRMZM2G162292_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv16s0050g01050.t01 (Vitis vinifera), 5'ss of exon 1

CAACAGTGACTCCGAGAAGACGAACAACACCATCCTCCAGATCAACCGCATCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcctggctcccctctcccccttccctcgccaatcgctcagatcccagggaccgacgcttgcgtgccgcttctccagatccctaaatctcacgccatttcttgaacccctcaacgcag
 || |||| ||| ||||||||||||||||||||  | |||||||||   |||||||||||| | || |||||||| ||||| ||||||||||| || |||||  |         || |   |      ||| ||     |     | || |  | |   | |  |||  |     || |   | |   ||  | |     ||||| ||                
TAATAGTGGCTCAGAGAAGACGAACAACACCATTGTTCAGATCAACAAGATCTTCAAGGACGGTATTGGCCTCGGTGGCATTTTCCACAGCGCTGTGCAGgtctt---------tctctctttataaatccgtctgtttttatctatatgc--gtggttgtcaattgt-tttgaattgttagggtttttatttttattttcatttttttttg------------

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|211458568|gb|FL265854.1|FL265854

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458574|gb|FL265860.1|FL265860

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458579|gb|FL265865.1|FL265865

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAG
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAG

EST: gi|71436670|gb|DR817720.1|DR817720

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458570|gb|FL265856.1|FL265856

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211461090|gb|FL265868.1|FL265868

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|37416464|gb|CF645882.1|CF645882

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458569|gb|FL265855.1|FL265855

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211355383|gb|FL265849.1|FL265849

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACG
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACG

EST: gi|211458581|gb|FL265867.1|FL265867

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|26456562|gb|CA828145.1|CA828145

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458573|gb|FL265859.1|FL265859

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211355385|gb|FL265851.1|FL265851

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|148955405|gb|EC900974.2|EC900974

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211355386|gb|FL265852.1|FL265852

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458577|gb|FL265863.1|FL265863

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGT
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGT

EST: gi|211458576|gb|FL265862.1|FL265862

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|74236561|gb|DT644475.1|DT644475

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458572|gb|FL265858.1|FL265858

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

EST: gi|211458567|gb|FL265853.1|FL265853

EST:     TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAG                         GTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC
genomic: TCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGC

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: 51

CAACAGTGACTCCGAGAAGACGAACAACACCATCCTCCAGATCAACCGCATCTTCAAGGACCGCATCGGCCTCGGCGGCATCTTCCACAGCGCCGTCCAGgtagtgggcc ... ctcaacgcagGTCTATGGCGAGGACGAGTGGTCGTTCGGGTTCTGCGAGTCCGGCAGCGGCGTGTTTAGTTGCCCCATAGGCAAGAACCCCATGTACACCTACCGGGAGC

Block sizes: 36 (upstream exon), 49 (downstream exon)
Score: 55

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 28