Sequence
atgc intronic sequence ATGC exonic sequencegtaagcagttcttactaacattaccaaaacaaacatggaaatctttcttcttgtatttagatgtattacaacatgtagatcgactctctaaacattcccatccatgatcaattatgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCATAGAGCTGAACACGATTGGTGTATCAAAAGACTCGCAGCAGCGAGCTGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g08990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G18880.1 (Glycine max), 3'ss of exon 2
gtaagcagttcttactaacattaccaaaacaaacatggaaatctttcttcttgtatttagatgtattacaacatgtagatcgactctctaaacattcccatccatgatcaattatgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCATAGAGCTGAACACGATTGGTGTATCAAAAGACTCGCAGCAGCGAGCTGCC
|| || | | | || |||| | | || | | | | | | ||| | | | | ||||| | ||| || ||| | || |||||||||||||| || ||||||| |||||||| ||||||| |||||||||||||| || ||||| || || || || || || | | |||||
------------ccctttggtttctgacaagtgtttg---atctatatgaaaataatgtaaagaa--agatcatatcacttaaattcctaaaagcttccactt-tg------tattttatatagGTGGGCTCTTGTGAAAGACCAAGAGGTAGCAAAGAAAATGACTAAATTCATAGAGCTGAATACAATTGGAGTGTCTAAGGATTCTCAACTCAGGGCTGCT
upper sequence: Vv17s0000g08990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G36040.1 (Glycine max), 3'ss of exon 5
gtaagcagttcttactaacattaccaaaacaaacatggaaatctttcttcttgtatttagatgtattacaacatgtagatcgactctctaaacattcccatccatgatcaattatgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCATAGAGCTGAACACGATTGGTGTATCAAAAGACTCGCAGCAGCGAGCTGCC
| | |||| | | ||| | || || | | | | | | ||| | | || | ||||| | ||| || ||| | || |||||||||||||| || ||||||| |||||||| ||||||| ||||||||||| || || ||||| || || || || || || | | |||||
--------------cctttggttttctgacaagtgtttga-tctatattaaaataatgtaaagaa--agatcatatcacttgaattcctaaaagcttccactt-tg------tattttgtatagGTGGGCTCTTGTGAAAGACCAAGAGGTAGCAAAGAAAATGACTAAATTCATAGAGCTCAATACAATTGGAGTGTCTAAGGATTCCCAACTCAGGGCTGCT
upper sequence: Vv17s0000g08990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G02520.1 (Glycine max), 3'ss of exon 2
gtaagcagttcttactaacattaccaaaacaaacatggaaatctttcttcttgtatttagatgtattacaacatgtagatcgactctctaaacattcccatccatgatcaattatgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCATAGAGCTGAACACGATTGGTGTATCAAAAGACTCGCAGCAGCGAGCTGCC
| |||||| | | | | || | | |||| || | | | | ||| | | |||| ||| || | | ||| | ||| || |||||| |||| || ||||||||||| |||||||| ||||||| ||||||||| | | || || ||||| || || || || || | ||||||||
----------------gaatttaccatagtgcataaga------ttttatcaaaacttagctgaaacgtgatagattgattg-cataataaat-ttcttataagtttttgcatatactttgtagGTGGGCTATTGTCAAAGATAAAGAGGTAGCAAAGAAAATGACTAAATTCATAGAGATAAGTACAATCGGTGTCTCGAAGGATTCTCAACTCAGAGCTGCC
upper sequence: Vv17s0000g08990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G09400.1 (Glycine max), 3'ss of exon 2
gtaagcagttcttactaacattac-caaaacaaacatggaaatctttcttcttgtatttagatgtattacaacatgtagatcgactctctaaacattcccatccatgatcaattatgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCATAGAGCTGAACACGATTGGTGTATCAAAAGACTCGCAGCAGCGAGCTGCC
| | ||| | | | || | || |||| | | | | ||||| | | || || || | | ||| || || || | || |||| || || ||||||||||| || ||||||| ||| |||||||| ||||||| ||||||||| | | || || ||||| || || || || || | ||||||||
---------cttaaataatagtgcataagatttttatcaaaat---------taaactgaaatgtaattgatgatataaat-aattttcttaa--ttaaaattttcg--catttat--tttctagGTGGGCTCTTGTCAAAGATAAAGGGGTAGCAAAGAAAATGACTAAATTCATAGAGATAAGTACAATCGGTGTCTCGAAGGATTCTCAACTCAGAGCTGCCMapped 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|349832956|gb|FQ423078.1|FQ423078EST: ATGTTGTTCACTGTCTCCAAAGCCACTGGCCATGCTGGGATGCGCCTTGG TTGGGCTCTTGTGAAGGATGAAGAGGTTGCAAAGAAGATGACTAGCTTCAT
genomic: ATGTTGTTCACTGTCTCAAAAGCCACTGGCCATGCTGGGATGCGCCTTGGgtaagcagtt ... tgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacatgtagatcgactctctaaacattcccatccatgatcaattatgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCATAGAGCTGAACACGATTGGTGTATCAAAAGACTCGCAGCAGCGAGCTGCC
ctctaaa putative branch site (score: 3)
atcaattat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcagttcttactaacattaccaaaacaaacatggaaatctttcttcttgtatttagatgtattacaacatgtagatcgactctctaaacattcccatccatgatcaattatgccttgcagTTGGGCTCTTGTGAAGGATAAAGAGGTTGCAAAGAAGATGACTAGCTTCATAGAGCTGAACACGATTGGTGTATCAAAAGACTCGCAGCAGCGAGCTGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC