ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTAGATGGCCGACCTATGAGTGGTGACATTGGCCGAGGTGCAACAAGGGAGACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaagccagcaattgaaatatttttggcctcatgtggctgtggctctctcgtccttatattttcatattttgctgtgcctgtggtttttgaag

Basic information

species	Zea mays
transcript	GRMZM5G864166_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G864166_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os05g06510.1 (Oryza sativa), 5'ss of exon 9

TTAGATGGCCGACCTATGAGTGGTGACATTGGCCGAGGTGCAACAAGGGAGACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaagccagcaattgaaatatttttggcctcatgtggctgtggctctctcgtccttatattttcatattttgctgtgcctgtggtttttgaag
||||||||||| || |||||||| ||||| |||||||||||||| ||||| ||||| || ||||| | |||| || ||||||||||| | || ||||||||||||  ||| ||    ||  || |       |    | ||||| ||    | || |||  || | |   ||||||    |   | ||||||| ||||
TTAGATGGCCGGCCGATGAGTGGCGACATAGGCCGAGGTGCAACGAGGGAAACAGTATCCTTTGCTGTTCATTTGTCTTCAATGTCAAATAGGCCTCCTGgtaaacaaagtcaatctttagaaaaaaaaaaactcgttatggctttg---ttatcatccacatttctaagtattttctaataa-tatggtttt-gaag

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|76293254|gb|DV032822.1|DV032822

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|50335339|gb|CO530465.1|CO530465

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|71772666|gb|DR970593.1|DR970593

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTG
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTG

EST: gi|78088236|gb|DV516629.1|DV516629

EST:     AGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: AGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|32828888|gb|CD968566.1|CD968566

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GATTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTGCTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|71756436|gb|DR954373.1|DR954373

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|50329288|gb|CO524414.1|CO524414

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|86469098|gb|DY235468.1|DY235468

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|71428088|gb|DR809138.1|DR809138

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|33100222|gb|CF060182.1|CF060182

EST:     CGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GATTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTGCTTAA
genomic: CGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|50326456|gb|CO521582.1|CO521582

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|32829465|gb|CD969143.1|CD969143

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GATTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTGCTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

EST: gi|50335340|gb|CO530466.1|CO530466

EST:     GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTG                         GGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA
genomic: GACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAA

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: 46 (upstream exon), 49 (downstream exon)
Score: 67

TTAGATGGCCGACCTATGAGTGGTGACATTGGCCGAGGTGCAACAAGGGAGACAGTTTCTTTTGCCGCTCATGTGGCTTCAATGTCAGAAAGACCTCCTGgtaaatgaag ... gtttttgaagGGTTCTATCAGTTGGCTGGTGGCACCAACTCATACACTGTTGATTACTTAAAGAAAGCTGGTCTTTTCCAATCATCAAATTGGAATTCAGGGACCGCAAC

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 33

Block sizes: 39 (upstream exon), 49 (downstream exon)
Score: 16