ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTACGCCTGGAAACCCTAGCCTTGACACCTTGATGAGCATGCTCAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatacactgctattgaagaacttggattgactattatttctggtttataatcattaaacgatggtcttatttcag

Basic information

species	Zea mays
transcript	GRMZM2G136769_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G136769_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os10g39620.6 (Oryza sativa), 5'ss of exon 5

GTACGCCTGGAAACCCTAGCCTTGACACCTTGATGAGCATGCTCAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatacactgctattgaagaacttggattgactattatttctggtttataatcattaaacgatggtcttatttcag
| | ||  |||||   |||||| |||||||||||| ||||||| |||||||||||| | ||||||||||||||||| || ||||| |||||||||  |||||     || || |  | |||  ||    | || | ||   |   |||| ||      |   |  |  |||||
GCATGCGGGGAAATGTTAGCCTCGACACCTTGATGGGCATGCTTAGTGGGCTTGGTGCTGGAGGTGGCATAGGTGTACCCAATACATCCAATGgtttgtata-gtaactctt-atcatcttccat--gtttttgtatc--atcactaattatggttttacacttgtgattcag

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|31356688|gb|CD441045.1|CD441045

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|211474441|gb|FL187197.1|FL187197

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|5777313|gb|AI974932.1|AI974932

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|24764824|gb|CA399986.1|CA399986

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|5791100|gb|AI977892.1|AI977892

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|60343852|gb|DN210825.1|DN210825

EST:     AAATACTTCCAATG                         TGCCACCGGGGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: AAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|31350418|gb|CD434775.1|CD434775

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|5922365|gb|AW055654.1|AW055654

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTATTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|71299524|gb|DR785772.1|DR785772

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTTTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|111990499|gb|EE331933.1|EE331933

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|24765744|gb|CA400903.1|CA400903

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|24769335|gb|CA404464.1|CA404464

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|67040170|gb|CO466425.1|CO466425

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|67035271|gb|CO463804.1|CO463804

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTC-AAATACTTCCA-TG                         TGCCACCGGAG-AGCTCTATGC-ACACAGCTTA-TCAGCTC-AAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|18173213|gb|BM348601.1|BM348601

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

EST: gi|24768442|gb|CA403571.1|CA403571

EST:     CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATG                         TGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG
genomic: CAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGG

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: 64

GTACGCCTGGAAACCCTAGCCTTGACACCTTGATGAGCATGCTCAGTGGGCTTGGTTCGGGAGGTGGCATAGGTGTTCCAAATACTTCCAATGgtgagtatac ... cttatttcagTGCCACCGGAGGAGCTCTATGCCACACAGCTTACTCAGCTCCAAGAAATGGGTTTCATTGACACTGCGGAGAACATTCAAGCACTGCTCGCTACCGCTGG

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 112

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 104