ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCTCAGTGTCTCCAATGCTGATACAAAGGTTGATGATGCTGAATTTGAAGAAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgattctgttatttgcatatgctgctcctttttttccctgtttgatcacgtctttgttgaatattcatggcag

Basic information

species	Zea mays
transcript	AC233895.1_FGT001
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: AC233895.1_FGT001 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g28280.1 (Oryza sativa), 5'ss of exon 6

GCTCAGTGTCTCCAATGCTGATACAAAGGTTGATGATGCTGAATTTGAAGAAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagc---gattctgttatttgcatatgctgctcctttttttccctgtttgatcacgtctttgttgaatattcatg-gcag
 || ||||| |||||||||||||| ||||| ||||||||||||||||| ||||||||||| |||||||| |||||||||||||||||||| || |||||||| ||    | | || ||||||| |     ||     | ||| |  | |||  | || | ||| || |||    | |  |||
ACTTAGTGTGTCCAATGCTGATACGAAGGTGGATGATGCTGAATTTGAGGAAAATGAAGTGTATGCAATTGATATTGTCACCAGCACTGGAGAAGGGAAGgtgagaatagctgcttttatttgaagg-attgtcttctgtttgctttttttttttacatttttttttaattacgacgcacag

upper sequence: AC233895.1_FGT001 (Zea mays), 5'ss of exon 5
lower sequence: PP1S119_137V6.1 (Physcomitrella patens), 5'ss of exon 5

GCTCAGTGTCTCCAATGCTGATACAAAGGTTGATGATGCTGAATTTGAAGAAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgattctgttat-ttgcatatgct---gctcctttttttccctgtttgatcacgtctttgttgaatattcatggcag-------------------
  | ||||     ||||| || |||   || ||||||||||||||||| ||||| ||||| || ||||| |||||||| || |||||||| || || ||||| |    |||| || | ||   ||| ||   | | |     ||   |||    |   |  |  || |||| | | | |                      
TTTGAGTGCTGGTAATGCGGAGACACGCGTAGATGATGCTGAATTTGAGGAAAACGAAGTTTACGCAATTGATATTGTAACAAGCACTGGTGAAGGAAAGgtgaaattttctattttgttctgtatactctgggtgcaagagtttgttgtacattgctgattacgtagaatgt-cttagtgacctgaatcgaggtttttta

upper sequence: AC233895.1_FGT001 (Zea mays), 5'ss of exon 5
lower sequence: PP1S80_199V6.1 (Physcomitrella patens), 5'ss of exon 5

GCTCAGTGTCTCCAATGCTGATACAAAGGTTGATGATGCTGAATTTGAAGAAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgattctgttatttgcatatgctgc-tcctttttttccctgtttgatcac----gtctttgttgaatattcatggcag------------------
 || || || |||||  | || ||    || ||||||||||| ||||| ||||| ||||| || ||||| ||||| || ||||||||||| || || |||||||    |      |||    |  ||    ||   || | || | |  | | ||      | || |  | | ||  | | |                   
TCTGAGCGTGTCCAACCCAGAGACGCGTGTAGATGATGCTGAGTTTGAGGAAAACGAAGTGTACGCAATAGATATCGTGACCAGCACTGGTGATGGAAAGgtaa-ttttctaaacattcttttcagcgatatcaacttctaccatatacggttactaggagcattttcaactgttgtttgaacagaatgaggttttgcttc

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|32932980|gb|CF037792.1|CF037792

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|31351014|gb|CD435371.1|CD435371

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|22549146|gb|BU101347.1|BU101347

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGCTATTGGATGAGAAACAGACCACCATCTA
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTA

EST: gi|14569289|gb|BI097612.1|BI097612

EST:     CACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: CACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|32850813|gb|CD990494.1|CD990494

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|84980121|gb|DW530470.1|DW530470

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|8665685|gb|BE186501.1|BE186501

EST:     ATATTGTCACCAGCACTGGGGAGGGAAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: ATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|32931969|gb|CF036781.1|CF036781

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|87155627|gb|DY400416.1|DY400416

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|22819488|gb|BU499578.1|BU499578

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAA
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAA

EST: gi|33097827|gb|CF057787.1|CF057787

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|32838111|gb|CD977789.1|CD977789

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|32838243|gb|CD977921.1|CD977921

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|32850802|gb|CD990483.1|CD990483

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|22473335|gb|BU037815.1|BU037815

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACA
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACA

EST: gi|111990961|gb|EE332393.1|EE332393

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|26559180|gb|CA831415.1|CA831415

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGA
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTT-ATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGA

EST: gi|33092800|gb|CF052794.1|CF052794

EST:     AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC
genomic: AAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGAC

EST: gi|166481550|gb|EG105102.1|EG105102

EST:     ATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAG                         CCCAAGTTATTGGATGAGAAACAGAACCACCATCTACAAAAGGGCCGTAGA
genomic: ATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGA-CCACCATCTACAAAAGGGCCGTAGA

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: 48 (upstream exon), 49 (downstream exon)
Score: 898

GCTCAGTGTCTCCAATGCTGATACAAAGGTTGATGATGCTGAATTTGAAGAAAATGAAGTATATGCAATCGATATTGTCACCAGCACTGGGGAGGGGAAGgtaagcgatt ... ttcatggcagCCCAAGTTATTGGATGAGAAACAGACCACCATCTACAAAAGGGCCGTAGACAAGAATTATCACTTGAAGATGAAAGCGTCAAGGTTTATTTTCAGTGAGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 751

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 766