ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtgagccagtctttagtcaatctagctatgtaaattccttaacatgattttgagctatctcctgaaccctaactattgcaataatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG

Basic information

species	Zea mays
transcript	GRMZM2G074037_T01
intron #	8
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G074037_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g40560.1 (Oryza sativa), 3'ss of exon 8

gtgagccagtctttagtcaatctagctatgtaaattccttaacatgattttgagctatctcctgaaccctaactattgcaataatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG
            | ||| || |||  ||     |   | |   |  || |||   |   |  ||    ||||||   ||     | || |||||||||||||| |||||| |||||||  | ||||| || || |||||||||||||| ||||| ||||| |||||||||||||| || || |||||||||
-----------gtgagttaacctacttaacctgag--catggtaaaatcttgttttgcattttg--ttctaactgaggc-----tgttccagGGCTTCAATGGTGCCGATCTGCGCAATGTCTGCACTGAGGCTGGCATGGCTGCTATTCGAGCAGAGCGCGACTATGTCATTCATGAAGATTTCATGAAG

upper sequence: GRMZM2G074037_T01 (Zea mays), 3'ss of exon 8
lower sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 8

---gtgagccagtctttagtc---aatctagctatgtaaattccttaaca--tgattttgag----ctatctcctgaaccctaactattgcaataatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG-
    |      || |  | ||   ||  | | | || | |||    |     | |||||| |       | | || |   |||||||| |   |    | |||||||||||| ||||| ||| | |||||| ||||||| ||||| ||||||  ||||||||| || || || ||||||||  | || || ||||| |||||| 
tttttttttttgtttgaaatctgcaactttgttttgcatattataaactggttaattttgggaggatggtgtgctcagagctaactatcgttgt----tcacagGGCTTCAACGGAGCTGATCTTCGCAACGTGTGCACTGAAGCGGGCATGTTTGCTATCCGGGCTGATCGGGACTATGTTGTACAAGAAGACTTTATGAAGG

upper sequence: GRMZM2G074037_T01 (Zea mays), 3'ss of exon 8
lower sequence: PP1S47_46V6.3 (Physcomitrella patens), 3'ss of exon 7

---gtgagccagtctttagtc---aatctagctatgtaaattccttaaca--tgattttgag----ctatctcctgaaccctaactattgcaataatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG
    |      || |  | ||   ||  | | | || | |||    |     | |||||| |       | | || |   |||||||| |   |    | |||||||||||| ||||| ||| | |||||| ||||||| ||||| ||||||  ||||||||| || || || ||||||||  | || || ||||| ||||||
tttttttttttgtttgaaatctgcaactttgttttgcatattataaactggttaattttgggaggatggtgtgctcagagctaactatcgttgt----tcacagGGCTTCAACGGAGCTGATCTTCGCAACGTGTGCACTGAAGCGGGCATGTTTGCTATCCGGGCTGATCGGGACTATGTTGTACAAGAAGACTTTATGAAG

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|60341539|gb|DN208512.1|DN208512

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|78022855|gb|DV491242.1|DV491242

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|76014726|gb|DT941896.1|DT941896

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|18964891|gb|BM661269.1|BM661269

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACGTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|78112489|gb|DV530883.1|DV530883

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|211416916|gb|FL328808.1|FL328808

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAA-CCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|6031401|gb|AW076303.1|AW076303

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|78112490|gb|DV530884.1|DV530884

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|5871518|gb|AW017989.1|AW017989

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCCCAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|60397395|gb|DN230211.1|DN230211

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|32805840|gb|CD958074.1|CD958074

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGGAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCGACGTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|5607728|gb|AI901395.1|AI901395

EST:     TCGCAAAGCATGGGGAGATTGNCTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACGTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

EST: gi|18180461|gb|BM381671.1|BM381671

EST:     TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAG                         GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT
genomic: TCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCT

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), 45 (downstream exon)
Score: 116

GCCGAATGAACAAGGGAGGATGGAGGTCCTCAAGATTCATGCAGCTGGCATCGCAAAGCATGGGGAGATTGACTATGAAGCTGTAGTCAAACTAGCTGAGgtgagccagt ... aatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 98

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 110

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 83

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

cttaacatgattttgagctatctcctgaaccctaactattgcaataatattacagGGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG