Sequence
atgc intronic sequence ATGC exonic sequencegtaaagcacataatttgctttttatctgttctgtgagtacaggggattgatttgtattttgtcttcgattatctactaatgcgccccttgctagttggttctgttggttgatgttttcaatacacatgtcattctctactcttttaatttttgaatctaatgccctctttttttaattttctttatatccagCTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGATGAAGCTTTCCGAAATCAACTTACTCAAACAGTGGATTCATTGTTAGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G03830.1 (Glycine max), 3'ss of exon 4
gtaaagcacataatttgctttttat--ctgttctgtgagtacaggggattgatttgtattttgtcttcgattatctactaatgcgccccttgctagttggttctgttggttgatgttttcaatacacatgtcattctctactcttttaatttttgaatctaatgccctctttttttaattttctttatatccagCTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGATGAAGCTTTCCGAAATCAACTTACTCAAACAGTGGATTCATTGTTAGCTT
|||| | ||| | || || ||| || | | | | | | | | | | | | | || | | ||| | | | || || || || ||| || | || || | || || ||| | ||| | | || | | | | | ||||||||||||||||| ||||||||||||||||| || ||||||||||| || ||| |||| ||| || || | |||| || | ||||||||||| |
gtaattgttgttgattgatgttcatgactgaactatcatcttatg---cttgctcgc--tctaattccaaatgtcatcaagattttgttttgtttatccttaatgccatttcattttccttata---at-ttgttgccttattttaggatagctgacagtgatgtgttaactcctttctctacctgtcttgcagCTGGATGTGACATCTGCTCAGCTTCTTGTGACGGACAATGATTTTAGAGACAAAGATTTCAGAATGCAGCTCAGCGAAACTATGAAATCATTGTTAGCAT
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 1
gtaaagcacataatttgctttttatctgttctgtgagtacaggggattgatttgtattttgtcttcgattatctactaatgcgccccttgctagttggttctgttggttgatgttttcaatacacatgtcattctctactcttttaatttttgaatctaatgccctctttttttaattttctttata-----tccagCTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGATGAAGCTTTCCGAAATCAACTTACTCAAACAGTGGATTCATTGTTAGCTT
||| | | | | | | | | | | | | || || || ||| | ||||| | | | |||||||||| | | | ||||| |||||||| || ||||||||||||||||| ||||| |||||| | ||||| | |||| | || ||||||||| | || ||| | || |||||| |
-------------------------------------------------------------------------------------------tagg-aataacgctaactaaaagtct---tctaagttttgtgctatattcattt--tccttgaactgcacttgcggtaattttaatttttcgtttcgcggtttcagCTCGATGTGACGTCTGCTCAGCTTCTTGTGACGGATAACGATTTTCGAGATGAGGATTTCAGGAAGCAACTTACTGAGACCGTGAAATCGTTGTTATCGC
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G41850.1 (Glycine max), 3'ss of exon 1
gtaaagcacataatttgctttttatctgttctgtgagtacaggggattgatttgtattttgtcttcgattatctactaatgcgccccttgctagttggttctgttggttgatgttttcaatacacatgtcattctctactcttttaatttttgaatctaatgccctctttttttaattttctttata-----tccagCTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGATGAAGCTTTCCGAAATCAACTTACTCAAACAGTGGATTCATTGTTAGCTT
| | || | | | | || ||| | | | | || || || ||| | ||||| | | || | |||||||||| | | | ||||| |||||||| || ||||||||||||||||| ||||| |||||| | ||| | | |||| | || ||||||||| | || ||| | || |||||| |
----------------------------------------------------------------------------------------taat-gtcagaataac--gctaaagtcttc----taggttttgtgctatattcattt--tccttgaactgcacgtgctgtaattttaatttttcatttcgcggtttcagCTCGATGTGACGTCTGCTCAGCTTCTTGTGACGGATAACGATTTTCGAGATAAGGATTTCAGGAAGCAACTTACTGAGACCGTGAAATCGTTGTTATCGCMapped 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|87586525|gb|DY474768.1|DY474768EST: GACACATTATTTAGCCAG CTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGAT
genomic: GACACATTATTTAGCCAGgtaaagcaca ... ttatatccagCTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcttttaatttttgaatctaatgccctctttttttaattttctttatatccagCTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGATGAAGCTTTCCGAAATCAACTTACTCAAACAGTGGATTCATTGTTAGCTT
ttttaat putative branch site (score: 3)
ccctctttttttaatt CT-rich tract
tctttttttaattttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagcacataatttgctttttatctgttctgtgagtacaggggattgatttgtattttgtcttcgattatctactaatgcgccccttgctagttggttctgttggttgatgttttcaatacacatgtcattctctactcttttaatttttgaatctaatgccctctttttttaattttctttatatccagCTGGATGTGACATCAGCTCAGCTTCTTGTGACTGATAATGATTTTAGGGATGAAGCTTTCCGAAATCAACTTACTCAAACAGTGGATTCATTGTTAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA