Sequence
atgc intronic sequence ATGC exonic sequence...tgtttggttattttctattcacagcttagttccataaaccttatgctttcttttcactacttactgactcttcaacttctctgtgccctcaaattttcagGGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCTGATCTTATTACTTGCTGGAGCCTGCCTAGGATCAATTGCTAAAGTGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G35310.2 (Glycine max), 3'ss of exon 12
-----tgtttggttattttctattcacagcttagttccataaacc-ttatgctttcttttcactacttactgactcttcaacttctctgtgccctcaaattttcagGGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCTGATCTTATTACTTGCTGGAGCCTGCCTAGGATCAATTGCTAAAGTGAGC
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agtaccgtataacttttaataaagcacatgtcttctcaatttgtcgttgcattttcttttga-tagttgctggtactt--actatatgataatgtta---ttccagGGTTGGGAAGCAGCGACTACGAGAAGCTAGGATCCAAGCCATTGATTATCTTATTTTGTTACTTGCTGGAGCCTGCTTAGGATCACTTTCCAAATCAAGT
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G32210.1 (Glycine max), 3'ss of exon 11
--tgtttggttattttctattcacagcttagttccataaaccttatgctttcttttcactacttactgactcttcaactt-ctctgtgccctcaaattttcagGGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCTGATCTTATTACTTGCTGGAGCCTGCCTAGGATCAATTGCTAAAGTGAGC
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agtagcttataaactttaat--aaagcacatgtctgttcaatctgtcgtctgcattttct-tttgttagttgttgtacttactccatgataatgttattccagGGTTGGGAAGCAGCGACTACGAGAAGCTAGGATCCAAGCCATTGATTATCTTATTTTGTTACTTGCTGGAGCCTGCTTAGGATCACTTACCAAATCAGGT
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G21570.1 (Glycine max), 3'ss of exon 9
-tgtttggttattttctattcacagcttagttccataaaccttatgctttcttttcactacttactgactcttcaacttctctgtgccctcaaattttcagGGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCTGATCTTATTACTTGCTGGAGCCTGCCTAGGATCAATTGCTAAAGTGAGC
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gtagcaactaaccttttaataatgaactggccttctcaatttggtttcttcactttcttgttagttggtggaacc-ctaattcatgccaatgttgtttcagGGTTGGTAAACAGCGATTACGAGAGGCTAAGATCCAAGCTATAGATTATTTAATATTATTACTTGCTGGAGCCTGCTTAGGAGCACTTACTAAAGCAAGTMapped 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|33406999|gb|CF212626.1|CF212626EST: AATCGGAGAACTCCTGGAGTTTTTCTGCAGTACAAATACTTTCTTGGCAG GGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCT
genomic: AATCGGAGAACTCCTGGAGTTTTTCTGCAGTACAAATACTTTCTTGGCAGgtaaatactt ... aaattttcagGGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttcttttcactacttactgactcttcaacttctctgtgccctcaaattttcagGGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCTGATCTTATTACTTGCTGGAGCCTGCCTAGGATCAATTGCTAAAGTGAGC
tactgac putative branch site (score: 1)
ttttc putative PPT
tcaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttggttattttctattcacagcttagttccataaaccttatgctttcttttcactacttactgactcttcaacttctctgtgccctcaaattttcagGGTTGCTAAGCAACGACTAAGAGAAGCTAGAATACAAGTAATAGATTATCTGATCTTATTACTTGCTGGAGCCTGCCTAGGATCAATTGCTAAAGTGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
tgtttgg
- - - - - - - -tattcac
- - - - - - - - - - - - - - - - -ataaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caacttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccctc