ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGAAGGCTGCCAATGGTTCAGAACCACGCCTCCGGGGATGCATAGGAACTCTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattgtttcagtattgaaattatgtctgatccaatgctgaaatatctggtcggtactcaaaatgttgatgggcttatgctgtaataagtagaaaagcaatcgtgcactttgtattggataatgtttagatatacggtaatcttgatatcctcttgcag

Basic information

species	Zea mays
transcript	GRMZM2G131667_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G131667_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g42250.2 (Oryza sativa), 5'ss of exon 2

AGAAGGCTGCCAATGGTTCAGAACCACGCCTCCGGGGATGCATAGGAACTCTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattgtttcagtattga-aattatgtctgatccaatgctgaaatatctggtcggtactcaaaatgttgatggg----cttatgctgtaataagtagaaaagcaatcgtgcactttgta----ttggataatgtttagatatacggtaatcttgatat--cctcttgcag
|||||||| |||||||||||||||||||||| || |||||||| |||||  ||||| | |||||||||||||  ||||| | ||| || || || || |||| |||| ||  | |  | ||      || | | |     | |||||| ||    ||  |    | |   |||  ||      || ||  ||  ||   | || || |     | | | |  |    |||  | || |  ||| | ||   ||  |  ||||   |||| ||||
AGAAGGCTACCAATGGTTCAGAACCACGCCTTCGAGGATGCATTGGAACCTTGGAGGCTCGTCAGATTGTCACTGGCTTCAAGGAGTATGCGCTCACAAGgtaactactgaataaccactgctgcccatttataagttcttactgaaacatggtctcattgtcaatacaattggaggaattttttttggggtgctacacataacagaacctaggtaatgttgactccttgtgttatatcaagacagacaaaaagataaatatactctctcgcag

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|37381281|gb|CF627515.1|CF627515

EST:     CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|211302255|gb|FL001844.1|FL001844

EST:     CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|21987668|gb|BQ779196.1|BQ779196

EST:     GTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         -GCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: GTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|30160506|gb|CB924235.1|CB924235

EST:     CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|44900457|gb|CK827002.1|CK827002

EST:     CTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|60343398|gb|DN210371.1|DN210371

EST:     CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|9731124|gb|BE509876.1|BE509876

EST:     CCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|60351758|gb|DN218731.1|DN218731

EST:     CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|5895985|gb|AW037231.1|AW037231

EST:     CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

EST: gi|38229665|gb|CF919978.1|CF919978

EST:     CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAG                         TGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC
genomic: CTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAAC

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: 120

AGAAGGCTGCCAATGGTTCAGAACCACGCCTCCGGGGATGCATAGGAACTCTGGAGTCCCGTCAGATTGTCAGCGGCTTTAGGGACTACGCCCTAACTAGgtgactattg ... cctcttgcagTGCGCTGAGGGACCGACGCTTTCCCCCAATACAATCAAAGGAACTCCCAACCTTGGAGTGCACGGTATCTATACTCACTGATTATGAAATTGCAGAGGAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 207

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 191