Sequence
atgc intronic sequence ATGC exonic sequence...ttagttgaaagatttgttggaaaatttttgttcctagcttattataataatttttatctttttttgttaagcttcttattttaattgattggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGACCTTACCTTGCACAAGGTCCAATTTCAAATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g01840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G30050.1 (Glycine max), 3'ss of exon 6
-ttagttgaaagatttgttggaaaatttttgttcctagcttattataat----aatttttatctttttttgttaagcttcttattttaattgattggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGACCTTACCTTGCACAAGGTCCAATTTCAAATAAG-----------------
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gttgatt-aaggatgtcatggatactatttttaggtaccttatatgaatttctaatttttattttagaacattaa--ttgtagttttattt--ttcattttatagGAATGGATGCCCAAGTGGCTTATGGTTTTCATCATTTACGGAATGAAAAACCTTACCTTGCACAAGGTCCAATTGCAAATAAGGTATTGATTGACTATTA
upper sequence: Vv11s0052g01840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G22380.1 (Glycine max), 3'ss of exon 6
ttagttgaaagatttgttggaaaatttttgttcctagct-tattataataatttttatctttttttgttaagc--ttcttat--tttaattgattggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGACCTTACCTTGCACAAGGTCCAATTTCAAATAAG
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-----tggtgttgatttaggatggatactatttttaggtaccttatatgaatttctaatttttattttagagcaataattattgtttttttttctcattttacagGAATGGATGCCCAAGTGGCTTATGGTTTTCATCATTTACGGAATGAAAAACCTTATCTTGCACAAGGTCCAATTACAAATAAG
upper sequence: Vv11s0052g01840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G01360.1 (Glycine max), 3'ss of exon 7
--ttagttgaaagatttgttggaaaatttttgttcctagcttattataataatttttatctttttttgttaagcttcttattttaattgattg-gtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGACCTTACCTTGCACAAGGTCCAATTTCAAATAAG
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gcttagggtgatggtaggatggaaatgtttt-cagatagctcaattgaat--ctctaatctgtatatctgagcattcacagaatatcctgttatattttacagGAATGGATGCCCAAGTGGCTTATGGCTTCCATCATCTACGCAATGAAAAACCTTACCTTGCTAGTGGTCCAATTTCAAATAAG
upper sequence: Vv11s0052g01840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G07480.1 (Glycine max), 3'ss of exon 6
----ttagttgaaagatttgttggaaaatttttgttcctagcttattataat-aatttttatctttttttgttaagcttcttattttaattgattggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGACCTTACCTTGCACAAGGTCCAATTTCAAATAAG
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tttcttggtttagggtgatggtaggatggaaatgttttcagatagctcaattgaatctctaatctgtatatctgagc-----attcatagaatatcctgttacagGAATGGATGCCCAAGTGGCTTATGGTTTCCATCATCTACGCAATGAAAAACCTTACCTTGCCAGTGGTCCAATTTCAAATAAGMapped 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|30303616|gb|CB980410.1|CB980410EST: AGGGAGTCTTTTATAATTACTTTTCCATAG GCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGAC
genomic: AGGGAGTCTTTTATAATTACTTTTCCATAGgtttgttctt ... ggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGAC
EST:
gi|30304336|gb|CB981130.1|CB981130EST: TATAATTACTTTTCCATAG GCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGAC
genomic: TATAATTACTTTTCCATAGgtttgttctt ... ggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataatttttatctttttttgttaagcttcttattttaattgattggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGACCTTACCTTGCACAAGGTCCAATTTCAAATAAG
tttttatctttttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagttgaaagatttgttggaaaatttttgttcctagcttattataataatttttatctttttttgttaagcttcttattttaattgattggtttcacagGCATGGATGCCCAAGTTGCCTATGGCTTTCATCATTTACGGAATGAAAGACCTTACCTTGCACAAGGTCCAATTTCAAATAAG
- - -tgaaaga
- - - - - - - - - ggaaaat
- - - - - - - - - - - - - - - -tcctagc