ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGCCGGTGTCGGGATTTGCACCGTCACGGATGTCGAGGTCAATGCCAAGGGGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctcttctccttttttcaccagtcttcttgctatagcccctttttttggtattgtgtattccattatgatgatatggagaattctagttttgacag...

Basic information

species	Zea mays
transcript	GRMZM2G055216_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G055216_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g39280.1 (Oryza sativa), 5'ss of exon 3

CGCCGGTGTCGGGATTTGCACCGTCACGGATGTCGAGGTCAATGCCAAGGGGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctcttctccttttttcaccagtcttcttgctatagcccctttttttggtattgtgtattccattatgatgatatggagaattctagttttgacag-----
 || ||||| ||||||||||| ||||||||||| ||||||||||||||||| |||||||||||||||||||| || ||||||||||||||||||||||||||||| | ||||||    ||    | || |  | ||  | |     | ||  | |||    |||||  | |   ||| |  | ||| |||||| ||         
GGCGGGTGTTGGGATTTGCACGGTCACGGATGTGGAGGTCAATGCCAAGGGATTCATCTGCGCTTGCGTGGCTGTCTTCTGCACGTCGCTTCAACAGATTgtgagtttttctcccccctt----aatcctgatactggacctgtgctgttatgcatttcaaattcccctttag-gatgttaaaaatactagttatggatactgca

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|149023508|gb|EE045856.2|EE045856

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|74233833|gb|DT641747.1|DT641747

EST:     GCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|78082074|gb|DV510486.1|DV510486

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCTTTTCAAAAGAAGTACAACAT
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACAT

EST: gi|91872782|gb|EB402739.1|EB402739

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|20803244|gb|BQ294294.1|BQ294294

EST:     GGTTCATCTGCGCTTGCGTGTCTGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATCGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|71439306|gb|DR820356.1|DR820356

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|26456709|gb|CA828292.1|CA828292

EST:     GTTCATCTNGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GTTCATCT-GCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|76282594|gb|DV022162.1|DV022162

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|149074480|gb|EE162876.2|EE162876

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGCGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|50337879|gb|CO533005.1|CO533005

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|87155665|gb|DY400454.1|DY400454

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|22935611|gb|BU571886.1|BU571886

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|26560089|gb|CA832324.1|CA832324

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|149008482|gb|EE040648.2|EE040648

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|78120872|gb|DV539256.1|DV539256

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|71436404|gb|DR817454.1|DR817454

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCA-CAGATT                         ACATTTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|71444649|gb|DR825699.1|DR825699

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|71446654|gb|DR827704.1|DR827704

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|148987586|gb|EE031452.2|EE031452

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|78113744|gb|DV532133.1|DV532133

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

EST: gi|71299090|gb|DR785540.1|DR785540

EST:     GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATT                         ACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG
genomic: GGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTG

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: 73

CGCCGGTGTCGGGATTTGCACCGTCACGGATGTCGAGGTCAATGCCAAGGGGTTCATCTGCGCTTGCGTGGCAGTGTTCTGCACGTCGCTTCAACAGATTgtgagctctt ... ctcttcccagACAATTGGTTCCTTTCAAAAGAAGTACAACATTGGGTCATTTGAGCTGCTGAGCAAAACTGCACCAATCCAGGCAATTTCACTCATTATACTGGGCCCCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 261

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 273