ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTTAGATCAAGTCGCAACTTTTGCATCGACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaatatccagtttaatttcctgaaggacaccagggtatgcctgagtaccactattagggcatgtacaacccacataaatgctctgtatcttatgg...

Basic information

species	Zea mays
transcript	GRMZM2G057251_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G057251_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os05g48020.1 (Oryza sativa), 5'ss of exon 8

CTTAGATCAAGTCGCAACTTTTGCATCGACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagta-----atatccagtttaatttcctgaaggacaccag-ggtatgcctga-gtaccactattagggcatgtacaacc-cacataaatgctc---tgtatcttatgg-----------------------------------------------------------------------------------------
|| ||||| ||||||||||| ||||| || ||| |||| || ||||| ||||||||||||||||| || ||||||||||||||       | |||||   |  |||   |  ||    |    | | |  ||  | |     |||    |  ||  |||   |  | || ||    | ||| |  ||                                                                                          
CTGAGATCTAGTCGCAACTTCTGCATTGATATCGTCCTGCTCTGTGTTATTCTTGGTATTGCGGCTTATCTTTACAAgtaagtgtttttgtttccagacaagcttcaataccgaagtaaacaatcttctcgacattctctctttacacgacataagaccattcccacattcttaattatatttcttgcatattttcttttagtcatactagtgaggtagcttgttactatagttgttagaccatttgctaatatttctccacgctttcgtgttgcag

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|60338253|gb|DN205226.1|DN205226

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|78076770|gb|DV505204.1|DV505204

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|78074902|gb|DV503336.1|DV503336

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|91869751|gb|EB400522.1|EB400522

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|60397948|gb|DN230764.1|DN230764

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|60400044|gb|DN232851.1|DN232851

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|74237328|gb|DT645242.1|DT645242

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|76018600|gb|DT945770.1|DT945770

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|78082804|gb|DV511197.1|DV511197

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGAGAGGGGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

EST: gi|32857817|gb|CD997498.1|CD997498

EST:     GACATCATCCTTCTGTGTGTCATTCTTGCTATTGCGGCCTACCTTTACAA                         TGGTCTAAAAAAGGGAGGCGGAGTCTTCTTGCCTTGGAACCGCTCATGTGC
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGT-C

EST: gi|5608427|gb|AI902004.1|AI902004

EST:     GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAA                         TGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG
genomic: GACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCG

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: 44 (upstream exon), 49 (downstream exon)
Score: 217

CTTAGATCAAGTCGCAACTTTTGCATCGACATCATCCTTCTGTGTGTCATTCTTGGTATTGCGGCCTACCTTTACAAgtaagtaata ... tggtgtgcagTGTTCTAAAAAAGTGAGGTGGAGTCTTCTTGCCTTGGAACCGCTCATGTCGTGGTCCCTTTGTCACCATGGTTCTACCCAGTTCTTTGAGCGATTTGTGT

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 236

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 255