ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttgagataatgggataatgaaaagtgaatcatgcattgcttaattagaaactgggtattctgtttttcctctgtcag

Basic information

species	Zea mays
transcript	GRMZM2G144254_T06
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G144254_T03 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g31874.2 (Oryza sativa), 5'ss of exon 10

GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttg-agataatgggataatgaaaagtgaatcatgcattgcttaattagaaactgggtattctgtttttcctctgtcag
  ||||  | |||||||||||||||||||||||||||||||| |||||||||||||| || ||||| || ||||||||||| ||||||||||||||||||||  ||| ||||||| | ||| |    |||  |  ||  |||| ||  ||||| | | | |||||  |  || ||  || |||   | ||
CCTGTCTCTTTTTGATGCAATACTGATTGTTCCAATGTTTCAGATTGCTTGGACCTTTTTTTCTATTTGCACAGGATTTGTGTACTTTCAAGAATATCAAgtgagtttctgtttgtaaatattatcgtaagcatgag--aatcttgtgttgctca-tgataaactaagggttttggattgccttcattag

upper sequence: GRMZM2G144254_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA02G07510.2 (Glycine max), 5'ss of exon 11

GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttgagataatgggataatgaaaagtgaatcatgcattg---cttaattagaaactgggtattctgtttttcctctgtcag---------
  ||||||| ||||||||||| || |||||||| |||||||| || || ||||| || ||||| || |||||||||||| | || |||||||||||||| |||  ||||| ||| |  | ||      | | |   |    | | ||| |   ||  |  |  |  |    ||  | ||         | |          
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTATATATTTTCAAGAATATCAGgtac-ttcctctttaacttgatacacacaggtagcctttgcctttcatgggcactctaagaagatttaatcatattattgaagaaaactaattaaatatca

upper sequence: GRMZM2G144254_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11

GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttgagataatgggataatgaaaagtgaatcatgcattgcttaattagaaactgggtattctgtttttcctctgtcag------------
  ||||||| ||||||||||| || |||||||| |||||||| ||  | ||||| |||||||| ||||||||||||||| | || |||||||||||||| |||  || || | | |  ||||  |   | | |   |      ||||| |      ||  ||      ||  | |  |      |  |             
ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtac-tttctctctcacttaatatgcacaggtagcctttgctttgcatgggcactctaagaagatttaatcatataatattgaagaaaactaattaaatac

upper sequence: GRMZM2G144254_T03 (Zea mays), 5'ss of exon 7
lower sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10

GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttgagataatgggataatgaaaag-----tgaatcatgcattgcttaattagaaactgggtattctgttt--ttcctctgtcag--------------------------------------------------------
 |||||  ||| ||||||||| || || |||||||||||||| ||||||||||| |||||||| |||||||||||||   ||||||||||||| | ||| ||   |  || ||    | | || |||  |           |   | ||     |  ||||  | | || | |  |  ||||  |   | |||||                                                         
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcat--ctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag

upper sequence: GRMZM2G144254_T03 (Zea mays), 5'ss of exon 7
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 5'ss of exon 10

GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttgagataatgggataatg-aaaagtgaatcatgcattgcttaattagaaactgggta-ttctgtttttcctctgtcag---------
||||||||| ||||||||||| || |||||||| |||||||||||||||||||| ||||||||||| |||||||||||||| |||||||| |||||||| ||    ||    |     |       |  |  | ||   | | |   |    |||| |     |    |   ||  |||| | | ||             
GTTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAAATTGCTTGGACTTTCTTCTCTATTTGTACAGGATTTGTATACTTTCAGGAATATCAGgtgctctctctctctctctctctctctcttatagaacctagtgactgaaaatttaacttaggtcaatttggctccattttacttgtgctgctcactggga

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|60359035|gb|DN226008.1|DN226008

EST:     GTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|93281607|gb|EB673871.1|EB673871

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|32844477|gb|CD984158.1|CD984158

EST:     ACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: ACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|5296213|gb|AI782893.1|AI782893

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|6227147|gb|AW155676.1|AW155676

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|113701592|gb|EE679096.1|EE679096

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|211277446|gb|FL309933.1|FL309933

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|60350817|gb|DN217790.1|DN217790

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|60356320|gb|DN223293.1|DN223293

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|19822362|gb|BQ048386.1|BQ048386

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|32844487|gb|CD984168.1|CD984168

EST:     ACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: ACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|19822356|gb|BQ048380.1|BQ048380

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

EST: gi|78022546|gb|DV490933.1|DV490933

EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC

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: 45 (upstream exon), 48 (downstream exon)
Score: 85

GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTCTTTGTTGGGATCTCCTTGCTAGCACCCGATGACACTAAAG

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 76