ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCTAGGTTCGGGGGTGCTTGCGTTCTGCCTTAACTTCTCCATCTTCTACGTCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccctaccctactccctccgctgctgctcgacattgattgacatagcatcttaaaatgtag

Basic information

species	Zea mays
transcript	GRMZM2G127591_T03
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G127591_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os04g59550.1 (Oryza sativa), 5'ss of exon 5

CCTAGGTTCGGGGGTGCTTGCGTTCTGCCTTAACTTCTCCATCTTCTACGTCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaa---------gatccctaccctactccctccgc---tgctgctcga-cattgattgacatagcatcttaaaatgtag
| |||| || || |||||||| || ||||| ||||||||||| |||||||| ||||||||||| || |||||||| ||||| ||||| |||||||| ||||||          |  |  | |  |  ||  | |     | |||||||| ||||  ||   |  |    ||    || ||
CATAGGCTCTGGAGTGCTTGCATTTTGCCTAAACTTCTCCATTTTCTACGTGATCCATTCAACCACTGCAGTGACCTTCAATGTTGCTGGCAACCTGAAAgtagcaaccatttggcctatgctttgttcttttcatatattctgctcgatcatttcttagaactgatcattgcgctgcag

upper sequence: GRMZM2G127591_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os04g59550.2 (Oryza sativa), 5'ss of exon 4

CCTAGGTTCGGGGGTGCTTGCGTTCTGCCTTAACTTCTCCATCTTCTACGTCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaa---------gatccctaccctactccctccgc---tgctgctcga-cattgattgacatagcatcttaaaatgtag
   ||| || || |||||||| || ||||| ||||||||||| |||||||| ||||||||||| || |||||||| ||||| ||||| |||||||| ||||||          |  |  | |  |  ||  | |     | |||||||| ||||  ||   |  |    ||    || ||
---AGGCTCTGGAGTGCTTGCATTTTGCCTAAACTTCTCCATTTTCTACGTGATCCATTCAACCACTGCAGTGACCTTCAATGTTGCTGGCAACCTGAAAGTAgcaaccatttggcctatgctttgttcttttcatatattctgctcgatcatttcttagaactgatcattgcgctgcag

upper sequence: GRMZM2G127591_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 4

CCTAGGTTCGGGGGTGCTTGCGTTCTGCCTTAACTTCTCCATCTTCTACGTCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaag-atccctaccctactccctccgctgctgctcgacattgattgacatagcatcttaaaatgtag--------------------------------
 ||  |||| || || || || ||||| || ||||||||||||||||| ||||| || || ||||| ||||| || |||||||| || || |||||||| ||||  |   | ||||||  |||    ||     |     | |  |  |   | ||  |  ||   |                                 
ACTCAGTTCTGGTGTTCTAGCCTTCTGTCTCAACTTCTCCATCTTCTATGTCATTCACTCCACAACTGCAGTCACATTCAACGTGGCTGGAAACCTTAAGgtaactaagacaaccctaaacccgttactaaatttttctttcggattgctctggatggtccaaaccaacaaaaggataagcactattaattcattatact

upper sequence: GRMZM2G127591_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT1G21870.1 (Arabidopsis thaliana), 5'ss of exon 4

CCTAGGTTCGGGGGTGCTTGCGTTCTGCCTTAACTTCTCCATCTTCTACGTCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaag-------atccctaccc---tactccctccgctgctgctcgacattgattgacatagcatcttaaaatgtag--------------
  |    || || || || || ||||| |||||||||||||||||||| ||||| || || ||||||||||| || ||||| || || || |||||||| ||||        ||||| | ||   ||          |  |  || |  || | | ||  ||    || |    | |              
TTTCAACTCAGGTGTTCTAGCTTTCTGTCTTAACTTCTCCATCTTCTATGTCATTCAATCCACAACAGCAGTCACATTCAATGTAGCTGGAAACCTTAAGgtaaatgaacaaatcccaaaccacataacattaatctttatattctagtttcaataactcagatgtttgatggatggtatgtgatttgcag

upper sequence: GRMZM2G127591_T03 (Zea mays), 5'ss of exon 5
lower sequence: PP1S6_175V6.1 (Physcomitrella patens), 5'ss of exon 5

CCTAGGTTCGGGGGTGCTTGCGTTCTGCCTTAACTTCTCCATCTTCTACGTCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccct-accctactccctccgctgctgc---tcgacat-tgattgacat--agcatcttaaaatgtag--------------------------
   |   || || |||   || || || || ||||||||||||||||||||||| ||| |||||||||| ||||| |||||||| ||||| ||| | ||||||||| | ||  |  || |    |  || |      | ||    || | || ||  | ||| ||| |                                
AACACTCTCTGGAGTGTCCGCTTTTTGTCTCAACTTCTCCATCTTCTACGTCATTCATGCAACAACAGCTGTGACCTTCAACGTGGCAGGAAACATGAAAgtaagacctcttgctgtaataatgctacttcaaaatatggatgcctggtggatatttatcatattagagcactccgtatgcacatgttcgttcaaatggc

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|23357608|gb|BU645257.1|BU645257

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|31356104|gb|CD440461.1|CD440461

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|56462111|gb|CK986409.1|CK986409

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGCCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|149099201|gb|EE185229.2|EE185229

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|56382297|gb|CV984966.1|CV984966

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|32836907|gb|CD976585.1|CD976585

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|76289586|gb|DV029154.1|DV029154

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|148933713|gb|EC877623.2|EC877623

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|18172122|gb|BM347510.1|BM347510

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|148942797|gb|EC887826.2|EC887826

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|50328830|gb|CO523956.1|CO523956

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCACCCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|18166348|gb|BM336187.1|BM336187

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|8516658|gb|BE123383.1|BE123383

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|5468610|gb|AI834401.1|AI834401

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|211440739|gb|FL468427.1|FL468427

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTYT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|13149872|gb|BG320194.1|BG320194

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|4804034|gb|AI665900.1|AI665900

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|211018876|gb|FL463754.1|FL463754

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|22520680|gb|BU079491.1|BU079491

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|60351094|gb|DN218067.1|DN218067

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|18169933|gb|BM339773.1|BM339773

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|18173393|gb|BM348781.1|BM348781

EST:     TCATCCATTCAGCAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|76909994|gb|DV163641.1|DV163641

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|24768736|gb|CA403865.1|CA403865

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|22542741|gb|BU093179.1|BU093179

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|211475641|gb|FL348857.1|FL348857

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|5124259|gb|AI745995.1|AI745995

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCCCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|71773355|gb|DR971259.1|DR971259

EST:     GGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: GGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|17931203|gb|BM268163.1|BM268163

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

EST: gi|78024301|gb|DV492688.1|DV492688

EST:     TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAA                         GTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT
genomic: TCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCT

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 5 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 292

CCTAGGTTCGGGGGTGCTTGCGTTCTGCCTTAACTTCTCCATCTTCTACGTCATCCATTCAACAACAGCAGTGACGTTCAACGTTGCAGGCAACCTTAAAgtaagatccc ... taaaatgtagGTCGCGGTGGCAGTGTTAGTGTCGTGGTCGATCTTCCGGAATCCAATCTCTGCAATGAATGCAATCGGGTGTGGAATCACCCTGGTTGGTTGCACTTTCT

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 214

Block sizes: 15 (upstream exon), 35 (downstream exon)
Score: 1

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 228