Sequence
atgc intronic sequence ATGC exonic sequence...actcaaacgtagtaccgtgctatcattatcttctgtgaaatgaagaggtagcaaagaacaattttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os01g67740.1 (Oryza sativa), 3'ss of exon 15
actcaaacgtagtaccgtgctatcattatcttctgtgaaatgaagaggtagcaaagaacaattttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
| || || | | | || ||| || |||||| | | || || | | ||| || || ||||| ||||| ||||||||||||||||||||||||||||| ||||| |||||||| ||||| || || || ||||||| ||| ||||||
------------------gtacatatgattctgaatagcttcaattggt--taatctgcaatttcatcaagcacaaattatcaataactttcacatgcagTCTTGAGAAGAGGGTCAATAAGAAAGTTATGGCAATGTTTGAGAAGGCAGAGGATGAGTATAATGATTTGATGTCAAAGAAAAACATCATTGAG
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G006452_T02 (Zea mays), 3'ss of exon 9
-----------------------------------------------------------------------------actcaaacgtagtacc-gtgctatcattatcttctgtgaaatgaagaggtagcaaaga-acaattttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
| | || | | |||||| | | |||| | | | ||| ||||| | ||| |||| || | || || || ||||| ||||| ||||||||||| ||||||||||||||||| || || |||||||||||||| || || || ||||||| ||| || |||
gtacatttgatatttctattggctccataattgataaaccatcataattactcctgacattttttgaatatatgatgatttggacaggttgctagtgctactg--aattgctgtatccatatcacctcccaattctgtaatttgcaatgtattcaccaatctttattacctgtttgcagTCTTGAGAAGAGGGTCAATAAGAAAGTAATGGCAATGTTTGAGAAGGCGGAGGATGAGTACAATGATTTGATGTCAAAGAAAAACATCATCGAG
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 16
--------actcaaacgtagtaccgtgctatcattatcttctgtgaaatgaagaggtagcaaagaacaattttt-tactga-----ttgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
| || || || | ||| || | | |||| || | | ||| | || || | | ||| |||||||| | ||| || || || || ||||||||||||| |||||||| ||||||||||||||||| || ||||||||||||||||| || || ||||| |||| ||||||||||
gtgtgttgctttgaaagtctaacattactaatatcaattcatgtgcaactacaat-tagatatcctcatttactgtggtgacacttttgtttttattgttttgcatccataagGCTTG-AGAAAAGGGTGAACAAGAAAGTGATGGCAATGTTTGAGAAGGCTGAAGATGAGTACAATGATTTGATGTCCAAAAAAAACATAATTGAG
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 16
--------actcaaacgtagtaccgtgctatcattatcttctgtgaaatga-----agaggtagcaaagaacaattttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
| ||| | ||| | ||| || | | |||| || | ||| | | || | || ||||||| | ||| || | || || | |||||||| || |||||||| ||||||||||||||||| |||||||||||||||||||| || || ||||| ||| ||||||||||
gtgtgttgctttaaaaatcttacttttgtattatcaattcatgtgcaactacaattagatatcctcatttactgtgattacacttttgttttcgttgttttgcatccacaagGCTTGAA-AAAAGGGTAAACAAGAAAGTGATGGCAATGTTTGAGAAGGCAGAAGATGAGTACAATGATTTGATGTCCAAAAAATACATAATTGAG
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 15
------------------------------actcaaacgtagtaccgtgctatcattatcttctgtgaaatgaagaggtagcaaagaaca-attttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
| |||| || || | | || | | | | |||| |||| | | | ||| || || | || || |||| || ||| ||| |||| ||||| ||||| ||||| |||||||| ||||||||||||||||||||||| ||||||| | ||||| || |||| | || |||
gtatgtgtatgagaattaacgttttatctttatgaaaccta-tattatattgtcgtcacatcat-tgaagtgaaatatcaatatgacatgcattcttcttcttttcctggttatttatttccctcatgaagCTTGGAAAAAAGAGTGAACAAGAAGGTTATGGCTATGTTTGAGAAAGCAGAAGATGAATACAATGCTCTGATATCGAAAAAAAATACTATCGAG
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 15
---------------------------------------------------------------actcaaacgtagt--accgtgctatcattatcttctgtgaaatgaagaggtagcaaagaacaattttttactgattgtttttt---cttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
| ||| | | | ||||| | || |||| | || || || | | | | | |||| | | ||| || || || || |||||||| ||||| ||||| || | ||| |||||||||||||| |||||||| || |||| | || ||||||||| ||||| |||
gtatgtttctaaggatagtcatagatttaattttgcaacttatataatattcactctcatgcaatgcaatatcaatggaatgtgctttatttttcttttttgtttcttctctttaattaaatgagaaatctctcctctcgtttcctggctattcattctcttataaagTCTAGAGAAAAGAGTGAACAAGAAGGTCACGGCTATGTTTGAGAAAGCTGAAGATGAATATAATGCTCTTATGACCAAGAAAAATATAATCGAGMapped 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|122692151|gb|EC993608.1|EC993608EST: CCTAGTAAAGCCAGGGCTGAACTTGACAAACTGCAAACTGAACAATCAGG CCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGA
genomic: CCTAGTAAAGCCAGGGCTGAACTTGACAAACTGCAAACTGAACAATCAGGgtatgtagct ... actaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggtagcaaagaacaattttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
cactaat putative branch site (score: 2)
ttgttttttcttcttt CT-rich tract
aattttttactgattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actcaaacgtagtaccgtgctatcattatcttctgtgaaatgaagaggtagcaaagaacaattttttactgattgttttttcttcttttcactaatgtagCCTGGAGAAAAGGGTGAATAAGAAAGTTATGGCAATGTTTGAGAAAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
-ctcaaac
- - - - - - - - -tgctatc
- - - - - - - - - - - - - - -cttctgt
- - - - - - - - - - - - - - - - - - -aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - -caaagaa