Sequence
atgc intronic sequence ATGC exonic sequence...tccaaataccttggtcaagattctcttctcttccatccagtatagatgtgaaattcagatctaagtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 5
-tccaaataccttggtcaagattct--cttctcttccatccagtatagatgtgaaattcagatctaagtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG
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acttgcatgaggtgttttatttttcagttatcaaggaatcttttactggtatgatagattttatcatatgaacttcattctgaaaacaaggtatatt---cagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 5
tccaaataccttggtcaagattc-tcttctcttccatccagtatagatgtgaaattcagatcta-agtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG
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-ttacatgaagtggttgttattgattcacaagaaggcctcttactggttcattagatatgactacaatgatttttattctggaa-gcatgttatattgacagGCGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGGGA------------
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 4
---tccaaata--ccttggtcaagattctcttctcttccatccagtatagatgtgaaattcagatctaagtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG
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cattacatgtagtttttgttgttgattcacaagaatgtcttactg-gttcattagatattactat---aatgaattttattctggaa-acatgttatattgacagGTGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGAGA------------Mapped 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|110361466|gb|EC924940.1|EC924940EST: GGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG GTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGAC
genomic: GGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAGgtatgaaatg ... ttgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGAC
EST:
gi|110413975|gb|EC979795.1|EC979795EST: GGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG GTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGAC
genomic: GGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAGgtatgaaatg ... ttgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgaaattcagatctaagtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG
ttctaaa putative branch site (score: 2)
taaaatgtttgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccaaataccttggtcaagattctcttctcttccatccagtatagatgtgaaattcagatctaagtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG
- -aaatacc
- - - - - - - - - - - - - -ctcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatgt