Sequence
atgc intronic sequence ATGC exonic sequencegtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g01840.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G29290.1 (Glycine max), 3'ss of exon 3
gtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
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---------------------------------ttttcaactgtgcaacatcaatatttaatgctttttagttcaactattattgctcttgtaact----tgtgaatcataacactcacctttttattgttgagcagGATCTTGGTTGGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
upper sequence: Vv16s0050g01840.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G29040.1 (Glycine max), 3'ss of exon 11
gtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
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---------------------------------ttttcaactgtgcaacatcaatatttaatgctttttagttcaactattattgctcttgtaact----tgtgaatcataactctcacctttttattgttgagcagGATCTTGGTTGGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAATTTAGACTTCAAAGAGCTGGCA
upper sequence: Vv16s0050g01840.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G23250.1 (Glycine max), 3'ss of exon 11
gtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
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-----------------------------------ttcaactgtgcaatatcaatattcaatgcttttcagttcaattattattgctcttgtaact-tgtgcatcataactcttttacctttatat-tgttgagcagGATCTTGGTTGGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAGAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
upper sequence: Vv16s0050g01840.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G29250.1 (Glycine max), 3'ss of exon 1
gtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
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-----------------------------------ttcaactgttcaacatcaatatttaatgctttttagttcaactattattgctcttgtaactagtgaatcataactct--cttacctttttattgttgagcagGATCTTGGGTTGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCAMapped 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|254915778|gb|GR905209.1|GR905209EST: AACAGGCCATTTGACCTTGATGAGGCGATTATCAGGCGGTTTGACCACAG AATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGTGATGATCCTGAAGAC
genomic: AACAGGCCATTTGACCTTGATGAGGCGATTATCAGGCGGTTTGACCACAGgtagatttgc ... tgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
aactaat putative branch site (score: 2)
aaactaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT