Sequence
atgc intronic sequence ATGC exonic sequence...tggaacaagaaagtagttaaagcatggactctatgttctgctacaatttgttgaccttaactgtgtaaaaatttccttattatgttgttgggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGAGGACTTAGTGTTGGCCTTGGAATAAACTACTCATGTGCAGACCAGTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G13650.1 (Glycine max), 3'ss of exon 11
-----tggaacaagaaagtagttaaagcatggact-ctatgttctgctacaatttgttgaccttaactgtgtaaaaatttccttattatgttgttgggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGAGGACTTAGTGTTGGCCTTGGAATAAACTACTCATGTGCAGACCAGTGGA
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gtatttatagtgatagaataagaaggaaataacctgttaatttatgctgctactttttattcctttaattttaaa----ttctttctgtgcc--tgtttatgatagTCTTTTCCAGAAGAACTGTTTTCTGTACTTCGGACAGTGCATCTACTGAGGGGACTTAGTGTTGGACTTGGAATCAATTACTCTTGTGCAGAACAGTGGA
upper sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA05G02990.2 (Glycine max), 3'ss of exon 12
-----------------------------------------------------tggaacaagaaagtagttaaagc-atggact-------ctatgttctgcta---caatttgttgaccttaactgtgtaaaaatttc-cttattatgttgttgggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGAGGACTTAGTGTTGGCCTTGGAATAAACTACTCATGTGCAGACCAGTGGA
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gtatgttggcactctgaatcaaattattaaataatgcagtaactattgatgcgtgctagttaatggtatttatagtgatggaataagaaggcaataacttgttaatttatgctgctactttttactcactaaattttaaattctttctgtgcctgtttatgatagTCTTTTCCAGAAGAACTGTTTTCTGTACTTCGGACAGTGCATCTACTGAGGGGACTTAGCATTGGACTTGGAATCAATTACTCTTGTGCAGAACAGTGGA
upper sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 11
-------------tggaacaagaaagtagttaaagcatggactctatgttctgctacaatttgttgaccttaactgtgtaaaaatttccttattatgttgttgggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGAGGACTTAGTGTTGGCCTTGGAATAAACTACTCATGTGCAGACCAGTGGA
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gtatttatagtgatggaataagaaggcaat-aacttgttaatt---tatgctgctactttttactcac-taaatttt----aaattctttc----tgtgcctgtttatgatagTCTTTTCCAGAAGAACTGTTTTCTGTACTTCGGACAGTGCATCTACTGAGGGGACTTAGCATTGGACTTGGAATCAATTACTCTTGTGCAGAACAGTGGAMapped 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|110426615|gb|EC993029.1|EC993029EST: TGCTACAACCTTTTGCAGAAGATTCTTCAATNNNNNNNGTTGGTGTTCAG GCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGA
genomic: TGCTACAACCTTTTGCAGAAGATTCTTCAATAAAAAAAGTTGGTGTTCAGgtatgcatta ... ggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGA
EST:
gi|34231997|gb|CF369043.1|CF369043EST: TGCTACAACCTTTTGCAGAAGATTCTTCAATNNNNNNNGTTGGTGTTCAG GCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGA
genomic: TGCTACAACCTTTTGCAGAAGATTCTTCAATAAAAAAAGTTGGTGTTCAGgtatgcatta ... ggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgttgaccttaactgtgtaaaaatttccttattatgttgttgggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGAGGACTTAGTGTTGGCCTTGGAATAAACTACTCATGTGCAGACCAGTGGA
ccttaac putative branch site (score: 3)
taaaaatttccttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggaacaagaaagtagttaaagcatggactctatgttctgctacaatttgttgaccttaactgtgtaaaaatttccttattatgttgttgggtatggtagGCTTTTCCAGAGGAACTGTTTTCTATCCTTCGTACGGTTCATCTATTGAGAGGACTTAGTGTTGGCCTTGGAATAAACTACTCATGTGCAGACCAGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
-ggaacaa
- - - - gaaagta
- - - - - - - - - - -gcatgga
- - - - - - - - - - - - - - ctctatg
- - - - - - - - - - - - - - - - - - -ctgctac
- - - - - - - - - - - - - - - - - - - - - - - - tgttgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtaaaaa