Sequence
atgc intronic sequence ATGC exonic sequence...atgatttatgccttttgctgatttggcaccttctactgttttcatgatttgtcatctcatttaaactgatgtccaaaaattttcaataatcttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g03930.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g25189.5 (Oryza sativa), 3'ss of exon 14
atgatttatgccttttgctgatttggcaccttctactgttttcatgatttgt---catctcatttaaactgatgtccaaaaattttcaataatcttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAG
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---atttgagctttgcatgtccctttcttcctttataatagtcatgcttcttaaatactctttacaatgtgaaataatgaaatccccttttcacgcaatacagGGGAATTGCAAGGCACTGTAATTATCTTGGGGATATACTGCTAGCTCTTTCATTTAGCTTACCCTGTGGAACCAG
upper sequence: Vv08s0007g03930.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G21450.2 (Glycine max), 3'ss of exon 11
--atgatttatgccttttgctgatttggcaccttctactgttttcatgatttgtcatctcatttaaactgatgtccaaaaattttcaataatcttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAG
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ccatttgccatctttttagagcttatgagagcaacatccatatccttgattctgtttctcattgaggccattaatctttcttattc--ttattatgttgaagGGGTATTGCTAGACACTGTAATTACCTAGGGGATTTGATGCTTGCTCTCTCCTTTAGCTTACCATGTGGGATAAG
upper sequence: Vv08s0007g03930.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G07580.1 (Glycine max), 3'ss of exon 3
atgatttatgccttttgctgatttggcaccttctactgttttcatgatttgtcatctcatttaaactgatg----tccaaaaattttcaataatcttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAG
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agaatttatgtttgatactgtctt--tatcatttgtcatcct--tgattctgtttctcattgaagtcattaagctttcttattcttattattgttatgttgaagGGGTATTGCTAGACGCTGTAATTACCTAGGGGATTTGATGCTTGCTCTCTCCTTTAGCTTACCATGTGGGATAAG
upper sequence: Vv08s0007g03930.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT3G52940.2 (Arabidopsis thaliana), 3'ss of exon 11
---------------------------------atgattt----atgccttttgctgatttggcaccttctactgttttcatgatttgtcatctcatttaaactgatgtccaaaaattttca-ataatcttgt-----tga-agGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAG
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gtatgttatatttatcttctcttgtttctttgcttggtttcgccatctctgtgtttgattgttcatcatgctgggaataaagagttgaaagttccgcaatgacacatttccgataacttaggtgctgttttgtatatatgacagGGGAATTGCAAGGCACTGTAATTACCTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGMapped 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|110390091|gb|EC954979.1|EC954979EST: GGTAAGCCTCCAAGAGTTATTGGGGGAAAGTTGCTTGCGTCTGGTTATTG GGGAATCACAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTC
genomic: GGTAAGCCTCCAAGAGTTATTGGGGGAAAGTTGCTTGCGTCTGGTTATTGgtaagattct ... cttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTC
EST:
gi|32458084|gb|CD799258.1|CD799258EST: GCCTCCAAGAGTTATTGGGGGAAAGTTGCTTGCGTCTGGTTATTG GGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTC
genomic: GCCTCCAAGAGTTATTGGGGGAAAGTTGCTTGCGTCTGGTTATTGgtaagattct ... cttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttgtcatctcatttaaactgatgtccaaaaattttcaataatcttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAG
aactgat putative branch site (score: 3)
tcttgtt putative PPT
aaaaattttcaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgatttatgccttttgctgatttggcaccttctactgttttcatgatttgtcatctcatttaaactgatgtccaaaaattttcaataatcttgttgaagGGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAG
- - - tatgcct
- - - - - - - -tgctgat
- - - - - - - - - - - - - caccttc
- - - - - - - - - - - - - - - - - - - - - catgatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaaat