Sequence
atgc intronic sequence ATGC exonic sequencegttggacatggaatgagtccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 3'ss of exon 4
gttggacatggaatgagtccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
| ||| |||| || | || | ||| | | | || |||| | ||| | |||||| ||||| ||||||||||| ||||||||||| || ||| |||| |||| ||||| || || ||||| |||||||| |||| || |||||||||||| |
---------gtaat-agtcaacattcatttcactgaatattataaacactcttgtttcattctcattt--tctgaact--tgcagACAAGGATTGGGATGATATTAAGTTTGGTGTGGAGAATCAAGTTGACTACTATGCCGTTTCTTTTGTCAAAGATGCTCAAGTTGTGCATGAATTGAAGGA
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G37210.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------------------gttggacatggaatgagtccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
|||| | || | | | | ||| | | || |||| ||| | |||| | |||| |||||||||| |||| ||||| |||||||| ||||| ||||| || || || ||||| ||||| ||||| || || ||||||||||||||| ||||||| |||||| |||||||
gttagattccggattattatttctatcttgattatttcttttaatgtttgtccatttcttctacatgcctctccatatatttgggtactga-caactgggtgagggttaaggtt--ttgttggtttcccaaggacatataata-tttgtgttgatttgctacagAGAAGGATTGGGATGACATCAAATTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCTTTTGTTAAAGATGCACAAGTAGTTCATGAACTGAAGAA
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G28980.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------gttggacatggaatgagtccccaat-gtttatagcaaatgctttgtt--ttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
| | | || | | | | | | ||| | || | || | | | |||| | || | || ||||| |||||| ||||| |||||||||||||||||||| || || || ||||| ||||| ||||| || ||||||||||| ||||| |||| || |||||| |||||||
gtcagaattcagattatgaatcccaatcttgacaatgctctagtgtctatttctttgtgtgccttgagttgcgtgggagggtagttgctcaggattgatgttatggtggtttcctatggacataata-ttcacattaatttgttgcagAGAAGGATTGGGATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTCTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAACTGAAGAA
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------gttggacatggaatgagtccccaat-gtttatagcaaatgctttgtt--ttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
| | | || | | | | | | ||| | || | | | | | |||| | || | || ||||| |||||| ||||| |||||||||||||||||||| || || || ||||| ||||||||||| || ||||||||||| ||||| |||| || ||||| |||||||
gtcagaattcagattattgatcccaatcttgacgatgctctggtgtctatttctttgtgtgcctctagttgtgtgggagggtagttgctcaggattgatgttatggtggcttcctatggacataata-ttcacattaatttgttgcagAGAAGGATTGGGATGATATCAAGTTTGGAGTGGATAACAAAGTTGACTTTTATGCTGTTTCCTTTGTTAAGGATGCTGAAGTTGTTCATGAGCTGAAGAA
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------------------------------gttggacatggaatgagtccccaatgtttatagc--aaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
|||| ||| ||| || |||| | ||| || | || | | | | || ||| |||| ||||| ||||||||||| ||||| || ||||| || || || ||||| |||||||||||||| |||||||| |||||||| |||| || || || ||||||||
gttcgaattttctgtttaccctctttttcactttttcttgttgctt-tggttgaagtgttgcatatttaagtctgaaagatcttactctgatgcttattttttgtaattatttt--cttgccgcagAGAAGGACTGGGAGGATATTAAATTTGGAGTGGAGAACAAAGTTGACTTTTATGCAGTTTCCTTTGTCAAAGATGCTCAAGTTGTACACGAGTTGAAGAAMapped 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|110688927|gb|EE068039.1|EE068039EST: AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTG AAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT
genomic: AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatg ... tttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT
EST:
gi|110698146|gb|EE075377.1|EE075377EST: AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTG AAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT
genomic: AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatg ... tttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
aattcaaaataacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggacatggaatgagtccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTTATGCAGTCTCCTTTGTTAAAGATGCAAAAGTAGTCCATGAATTGAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA