ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaactgggttgctgtttcagatacggtcgattacatggtggaataatgtgggtttgatgtcactatgttatcttgcag

Basic information

species	Zea mays
transcript	GRMZM2G156251_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g27020.1 (Oryza sativa), 5'ss of exon 2

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaactgggttgctgtttcagat-acggtcgattacatggtggaataatgt-gggtttgatgtcactatgttatcttgcag
 || ||||||||||||||||| ||||| || |||||||| ||||||||||| |||||||| || || || ||    || |||||||| ||  |||| ||||||| | |   |    |||| | ||   | |  | ||| ||| || ||| |  ||||    |||||||    | |  | ||| ||||
GTCGAGGATGTCATGCAGCCTGTACCTGGTGTTCGAGTATATGGAGCATGACCTTGCTGGCCTGGCAGCGAGCCCGGACGTCAAGTTTACTCTGCCGCAGgtgtttaaggatcccgtgctatctcgttttataggcgaatacttgctgggaatatgttaaatttgatgatgatgtact-tctcgcag

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g27020.2 (Oryza sativa), 5'ss of exon 2

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaactgggttgctgtttcagat-acggtcgattacatggtggaataatgt-gggtttgatgtcactatgttatcttgcag------------------
 || ||||||||||||||||| ||||| || |||||||| ||||||||||| |||||||| || || || ||    || |||||||| ||  |||| ||||||| | |   |    |||| | ||   | |  | ||| ||| || ||| |  ||||    |||||||    | |  | ||| ||||                  
GTCGAGGATGTCATGCAGCCTGTACCTGGTGTTCGAGTATATGGAGCATGACCTTGCTGGCCTGGCAGCGAGCCCGGACGTCAAGTTTACTCTGCCGCAGgtgtttaaggatcccgtgctatctcgttttataggcgaatacttgctgggaatatgttaaatttgatgatgatgtact-tctcgcagataaaatgctatgtgcag

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA17G02580.1 (Glycine max), 5'ss of exon 2

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa--ctgggttgct--gtttcagatacggtcgattacatggtggaataatgtgggtttgatgtcactatgttatcttgcag--------------------------------------
 || ||||||||||||||  | ||||||||||| || |||||||| |||||| | ||||| |||||  ||||        | ||||||||   | ||||||| | |  |    |  ||||||  || | | ||   |      || |||| |||   | ||  |   |    |   | |  |  || |                                       
TTCAAGGATGTCATGCAGTTTGTACCTTGTCTTTGAATACATGGATCATGATTTGGCTGGACTTGCTACAAGCCCCACAATTAAGTTCACAGAGTCTCAGgtttttacatatttacgttgcttagtgtaaaatctagcactagacttggttgaaatttatgattcaaaaaaaatcttttgtttctggatttggaacttcttttccttactatagctgggtattttag

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA07G38140.1 (Glycine max), 5'ss of exon 2

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaactggg--ttgct--gtttcagatacggtcgattacatggtggaataatgtgggtttgatgtcactatgttatcttgcag--------------------------------------
 || ||||||||||||||  | ||||||||||| || |||||||| |||||| | ||||| |||||  ||||        | ||||||||   | ||||||| | |  |  |     |||||  || | | ||   |      || |||| |||   | ||  |   |   ||    ||  |  || |                                       
TTCAAGGATGTCATGCAGTTTGTACCTTGTCTTTGAATACATGGATCATGATTTGGCTGGACTTGCTACAAGCCCCACAATTAAGTTCACAGAGTCTCAGgtttttacatatataccttgcttagtgtaaaatctagcactagacttggttgaaatttatgattcaaaaagcatctcgtgtttctggatttggaacttcttttcttgattatagctgggtattttag

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ24328 (Selaginella moellendorffii), 5'ss of exon 2

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaactgggttgctgtttcagatacggtcgattacatggtggaataatgtgggtttgatgtcactatgttatcttgcag
|||| | ||||| | |||||| |||||||| ||||||||||||||||| |||||||| || || || ||  ||   |   ||| ||||||    || ||||| ||  |||        || |||    | |  ||  ||||||| |    |  || |  ||                        
CTCCCGCATGTCGTCCAGCCTCTACCTTGTGTTCGAGTACATGGAGCACGATCTTGCCGGGCTCGCAGCTTGTCCGGGCATCATGTTCACAGAACCACAGgtttgcaaaagctaccctctctttttttttccttcagttacatgtt----ttttgcgatttcag---------------------

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ30402 (Selaginella moellendorffii), 5'ss of exon 2

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtg-tgaaactgggttgctgtttcagatacggtcgattacatggtggaataatgtgggtttgatgtcactatgttatcttgcag
 ||||||||||| | |||||| || || || ||||||||||||||||| || ||||| || ||||| ||  ||   |   ||| ||| ||   ||| |||||| |  || ||  |  ||||   |    | | |   | |  |||  | ||       |                           
GTCCAGGATGTCCTTCAGCCTCTATCTCGTGTTCGAGTACATGGAGCACGACCTTGCCGGGCTTGCTGCGTGTCCAGGCATCACGTTTACAGAGCCGCAGgtgagacgagacgtgaatgcttccttgatttctgattactgaatg-cgaaagccgacag---------------------------

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ35595 (Selaginella moellendorffii), 5'ss of exon 1

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaactgggttgctgtttcagatacggtcgattacatggtggaataatgtgggtttgatgtcactatgttatcttgcag
|||| | ||||| | |||||| |||||||| ||||||||||||||||| |||||||| || || || ||  ||   |   ||| ||||||    || ||||| ||  |||     |  || |||    | |  ||  ||||||| |    |  || |  ||                        
CTCCCGCATGTCGTCCAGCCTCTACCTTGTGTTCGAGTACATGGAGCACGATCTTGCCGGGCTCGCAGCTTGTCCGGGCATCATGTTCACAGAACCACAGgtttgcaaaagctactctcttttttttttcct-tcagttacatgtt----ttttgcgatttcag---------------------

upper sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ28510 (Selaginella moellendorffii), 5'ss of exon 2

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtg-tgaaactgggttgctgtttcagatacggtcgattacatggtggaataatgtgggtttgatgtcactatgttatcttgcag
 ||||||||||| | |||||| || || || ||||||||||||||||| || ||||| || ||||| ||  ||   |   ||| ||| ||   ||| |||||| |  || ||  |  | ||   |    | | |   | |  |||  | ||       |                           
GTCCAGGATGTCCTTCAGCCTCTATCTCGTGTTCGAGTACATGGAGCACGACCTTGCCGGGCTTGCTGCGTGTCCAGGCATCACGTTTACAGAGCCGCAGgtgagacgagacgtgaatacttccttgatttctgattactgaatg-cgaaagccgacag---------------------------

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|78108483|gb|DV526901.1|DV526901

EST:     ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCCAGTTCACGTTGCCTCAA                         ATAAAATGTTACCTACAGCAGCTGTTG
genomic: ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTG

EST: gi|78114940|gb|DV533328.1|DV533328

EST:     TCTTGCTGGTCTTGCGGNCA-GTTGTGATGTCAAGTTCACGTTGCCTCAG                         ATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC
genomic: TCTTGCTGGTCTTGCGG-CAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC

EST: gi|78104873|gb|DV523291.1|DV523291

EST:     ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAG                         ATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC
genomic: ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC

EST: gi|149108874|gb|EE293017.2|EE293017

EST:     ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAG                         ATATTATGTTACATACAGCAGCTGTT
genomic: ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTT

EST: gi|13178081|gb|BG349339.1|BG349339

EST:     AAGTTCACGTTGCCTCAG                         ATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC
genomic: AAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC

EST: gi|149097793|gb|EE183717.2|EE183717

EST:     ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAG                         ATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTT
genomic: ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTT

EST: gi|19436114|gb|BM952524.1|BM952524

EST:     ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAG                         ATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC
genomic: ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC

EST: gi|148944130|gb|EC889218.2|EC889218

EST:     ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAG                         ATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC
genomic: ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC

EST: gi|67028072|gb|CO456821.1|CO456821

EST:     ATCTTGCTGGTCTTGCGGCAAGTTGTTATGTCCCGTTCACGTTGCCTCAG                         ATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC
genomic: ATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGAC

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: 310

CTCCAGGATGTCATGCAGCCTTTACCTTGTCTTCGAGTACATGGAGCATGATCTTGCTGGTCTTGCGGCAAGTTGTGATGTCAAGTTCACGTTGCCTCAGgtgtgtgaaa ... tatcttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGACAATAATGTATTGCACCGGGATATCAAGGGGTCAAACTTGTTGTTGGATA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 187

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 133