ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CACTCTATTAAGCCTTGCTGAAATCAATGATTCTTTACTAGCACTAAGTGGTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacacctgcacatctataattcaattctcaatatctatgaatattgttttgtttgaattcattaatagttctgcacttttcatgccttag

Basic information

species	Zea mays
transcript	GRMZM2G128080_T01
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G128080_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g16100.1 (Oryza sativa), 5'ss of exon 5

CACTCTATTAAGCCTTGCTGAAATCAATGATTCTTTACTAGCACTAAGTGGTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacacctgcacatctataattcaattct-caatatctatgaatattgttttgtttgaattcattaa---tagttctgcacttttcatgccttag
|||| ||||||| ||||||||||||||||||||||| ||||  ||  |||   |||||||||||||||||||| ||||||| || |||||| |||||||||||||| || |||    || | |||| | |||| | | || |     | ||  | || ||||| |  || |   || |||||  || |  ||   ||||
CACTTTATTAAGTCTTGCTGAAATCAATGATTCTTTGCTAGAGCTGGGTGACAAATCTGTTGAGCCCTTACAGATAAATGTACTCGACTATGTTTTAGGGgtaaatgcaactg----tccaaaatttagttctgctaaatatccttttctttgtctgcttgaagttgttgagggtatttctgtgctgtcaatatgttag

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|91869826|gb|EB400560.1|EB400560

EST:     GTCCATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|71328612|gb|DR800970.1|DR800970

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|211086793|gb|FL353523.1|FL353523

EST:     CTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: CTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|76286839|gb|DV026407.1|DV026407

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|211439800|gb|FL306622.1|FL306622

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|71425688|gb|DR806834.1|DR806834

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|71425689|gb|DR806835.1|DR806835

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|211109868|gb|FL467765.1|FL467765

EST:     TTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: TTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|60356030|gb|DN223003.1|DN223003

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|166655787|gb|EG083444.1|EG083444

EST:     GCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATTGGCCGTATATCT
genomic: GCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|78124658|gb|DV543042.1|DV543042

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATTT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|4804244|gb|AI666110.1|AI666110

EST:     TACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: TACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|71328613|gb|DR800971.1|DR800971

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|60343645|gb|DN210618.1|DN210618

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

EST: gi|101382451|gb|EB813281.1|EB813281

EST:     GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGG                         GTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT
genomic: GTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCT

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: 47 (upstream exon), 45 (downstream exon)
Score: 100

CACTCTATTAAGCCTTGCTGAAATCAATGATTCTTTACTAGCACTAAGTGGTCAATCTGTTGAGCCCTTACAGTTAAATGTGCTTGACTATCTTTTAGGGgtaaatacac ... catgccttagGTTGCTGATTTGTCCGGAGAGCTTATGAGGCTCGCAATAGGCCGTATATCTGATGGGGAAGTTGAATATGCAAAAACTATCTGTGCTTTTGTGCGGGATA

Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 73

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 54