Sequence
atgc intronic sequence ATGC exonic sequencegttggtatatcttattcatgttactgagaatcgttactcagaagtttgtcattaccttcattattaactgtgatatgtgttcccccttgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCAAAGCAGAAGAAGAGAAAGAAGAGAAAGGCACAGAAAGCTTGTTCTATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G03660.1 (Glycine max), 3'ss of exon 6
gttggtatatcttattcatgttactgagaatcgttactcagaagtttgtca-ttaccttcattattaactgtgatatgtgttcccccttgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCAAAGCAGAAGAAGAGAAAGAAGAGAAAGGCACAGAAAGCTTGTTCTATAT---
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---------gtacatacatgtt-ctttgaatcttt--tgaaagttctgaaggttaaaggaagtcatgaccttattg-atgttagcctttgta-tacagAATGTGAAGGCTGTTTTTGATGCGGCCATCAAGGTAGTTCTCCAGCCCCCAAAACAGAAGAA---AAAGAAGAGAAAGGGGCAAAAGGCCTGTTCCATTTTGT
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G11510.1 (Glycine max), 3'ss of exon 6
gttggtatatcttattcatgttactgagaatcgttact-cagaagtttgtcattaccttcattattaactgtgatatgtgttcccccttgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCAAAGCAGAAGAAGAGAAAGAAGAGAAAGGCACAGAAAGCTTGTTCTATAT---
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gtacatacatgttctttgaatctttaaaagttctgaaggttaaaggaagtcatgacctt----attgatgttaa-----------ccttgca-tacagAATGTGAAGGCTGTTTTTGATGCAGCCATCAAGGTAGTTCTCCAGCCCCCAAAGCAGAAGAA---AAAGAAGAGAAAGGGACAAAAGGCCTGTTCCATTTTGT
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S126_126V6.2 (Physcomitrella patens), 3'ss of exon 7
-gttggtatatcttattcatgttactgagaatcgttactcagaagtttgtcatt--accttcattattaactg-tgatatgtgttcccccttgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCAAAGCAGAAGAAGAGAAAGAAGAGAAAGGCACAGAAAGCTTGTTCTATAT---
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ggtcacaacgtgtcatagctctagcaattgtagatgattccggtaattggcgtttaaacaacaccgccatcttctgatgcgt-tgctgtctttcattgcagAATGTGAAAGCAGTTTTTGATGCAGCAATCAAGGTGGTTCTTCAGCCACCCAAGCAGAAGAAGAAGAAAAAAAAA----CAAAAGAACTGTGTCATACTCTGA
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S257_74V6.1 (Physcomitrella patens), 3'ss of exon 6
gttggtatatcttattcatgttactgaga--atcgttactcagaagtttgtcattaccttcattattaactgtgatatgtgttccccct--tgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCAAAGCAGAAGAAGAGAAAGAAGAG--AAAGGCACAGAAAGCTTGTTCTATAT
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-tttctgtaggtgggaacttgcaccaagattatgtcaactatgtagtgcactgtgtcaattatttttttgtttgatggcgatttattgtattctattgcagAATGTGAAAGCAGTTTTTGATGCCGCCATAAAGGTGGTTCTTCAGCCACCCAAGCAGAAGAAGAAGAAAAAGAAGCAAAAGAACTGTGTCATTCTCTAAT--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|27581311|gb|CB004006.1|CB004006EST: AGCTGATTGGAGCTCCTGCTTACATTGAATGTAGTTCAAAAACACAGCAG AACGTGAAGGCTGTCTTTGATGC
genomic: AGCTGATTGGAGCTCCTGCTTACATTGAATGTAGTTCAAAAACACAGCAGgttggtatat ... tgtaatacagAACGTGAAGGCTGTCTTTGATGC
EST:
gi|77585106|gb|DV221640.1|DV221640EST: AGCTGATTGGAGCTCCTGCTTACATTGAATGTAGTTCAAAAACACAGCAG AACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCA
genomic: AGCTGATTGGAGCTCCTGCTTACATTGAATGTAGTTCAAAAACACAGCAGgttggtatat ... tgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttgtcattaccttcattattaactgtgatatgtgttcccccttgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCAAAGCAGAAGAAGAGAAAGAAGAGAAAGGCACAGAAAGCTTGTTCTATAT
tattaac putative branch site (score: 1)
tgttccccctt putative PPT
ttcattattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtatatcttattcatgttactgagaatcgttactcagaagtttgtcattaccttcattattaactgtgatatgtgttcccccttgtaatacagAACGTGAAGGCTGTCTTTGATGCGGCCATTAAGGTGGTTCTCCAGCCACCAAAGCAGAAGAAGAGAAAGAAGAGAAAGGCACAGAAAGCTTGTTCTATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA