Sequence
atgc intronic sequence ATGC exonic sequencegtgtgttataggtgctacattaattctttataatctatggcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G06200.1 (Glycine max), 3'ss of exon 10
------gtgtgttataggtgctacattaattctttataatctatg--gcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
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gtatatactaattaagtttataactctattactccacgatgtctcatgcgttctctatagacacttattcctcatacatgcagCTTTTTCAAGCGGTTGTGCAAAAAGATAACAGCTCTGACCTTGCTTTCGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACGGGGA
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 9
-------gtgtgttataggtgctacattaattctttataatctatggcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
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gtatatactaagtttataactctatattactccacgatgtctcatg-cgttctctatt--gacac--ttatttctcacacagCTTTTTCAAGCGGGTGTGCAAAAAGATAACAGCTCTGACCTAGCTTTTGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACCGGGA
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 6
gtgtgttataggtgctacattaattctttata---atctatggcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
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gtatagttttact-ctacattaccctgtaatgtctgtctcgcacattcctca--ctaacact-tcgattctcatacagCTTTTGCAGGCTGTGATACAAAAGGATAACAGCCCTGATCTTGCTTTTGCTATTGATATTTGGAGTTTGGGTTGTACCATCATTGAAATGTTCACTGGGA
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G20460.1 (Glycine max), 3'ss of exon 8
gtgtgttataggtgctacattaattctttata---atctatggcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
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gtatattcttact-ctacattaccctgtaatgtccatctcacacattcctca--ctaacacc-tcaattctcatacagCTTTTGCAGGCTGTGATACAAAAGGATAACAGCCCTGATCTTGCTTTTGCTATTGATATTTGGAGTTTGGGTTGTACCATCATTGAAATGTTCACTGGGA
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 7
------------gtgtgttataggtgctacatta-attctttataatctatg-gcattccta-attctgacatcattgtct-ttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
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gtggtcattgttctatgatctttgaaataaactagactctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGAMapped 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|161712085|gb|FC061457.1|FC061457EST: CAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG CTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCT
genomic: CAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAGgtgtgttata ... tttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCT
EST:
gi|110689010|gb|EE067915.1|EE067915EST: CAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG CTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCT
genomic: CAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAGgtgtgttata ... tttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattctttataatctatggcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
ttctgac putative branch site (score: 2)
ttgtctttct putative PPT
tttataatctat 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
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gtgtgttataggtgctacattaattctttataatctatggcattcctaattctgacatcattgtctttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG