Sequence
atgc intronic sequence ATGC exonic sequence...atcaatttaaaaaaaatcgtatttatacattttgttgttctgctccacatgtcttcatgtccatgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 11
--atcaatttaaaaaaaatcgtatttatacattttgttgttctgctccacatgtctt---catgtccatgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
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atattcattcctgaaatttccca-----accttttgtttatgtgcattgcatttttcaaacttttatatataatacaaatgcactaaagatattttggtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 11
---atcaatttaaaaaaaatcgtatttatacattttgttgttctgctccacatgtcttca--tgtc-catgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
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tatattcattcctgaaatttccca-----accttttgtttatgtgcgttgcattttttaaattgttacatataatacaaatgcactaaagatatttg-gtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G36480.2 (Glycine max), 3'ss of exon 5
-atcaatttaaaaaaaatcgtatttatacattttgttgttct-gctccacatgtcttcatgtccatgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
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ggtttttgactaaaatttctcaaccgtgtctatggatgtttttgccttccaagctcttatgtttg-gtcaaatttttgaactaagaaattttg-gtggtcagGATACACAATTGCTTCTATGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGACGGCCACCTGGTGGATCCCCAACTTACAGTACTGGAAGTCAGT
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 10
atcaatttaa-aaaaaatcgtatttatacattttgttgttctgctccacatgtcttcatgtccatgttgaacca--ttgtgcaacttgtc--tttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
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--caatttaagaaaaaagtgtggttgtaatttgtatgaatgtgttttgcct---tccaagctcgtgtttggtcaaattttggaactaagaaattttggtgatcagGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGGCGGCCACCTGGTGGATCCCCGACTTACAGTACTGGAAGCCAGT
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G37160.2 (Arabidopsis thaliana), 3'ss of exon 10
----atcaatttaaaaaaaatcgtatt-tatacat-tttgttgttctgctccacatgtcttcatgtccatgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
||| | | | || | || | | ||| |||| ||| || || || ||| ||||||| | || | | ||| |||| || ||||||||||||||||| ||||||||||| ||||||||||||||||| || || || || || ||| || || || || |||| ||| || || || || |
tgtggtcattgtttgataacttatactatgatcatctttggggttttgggccttttggcttgcattccatgt-----ctttattcc-cttttcttgtgccgaacagGACACACAGTTACTGCTATGGGACCTAGAAATGGATGAGATTGTTGTTCCCCTACGGCGACCTCCAGGAGGATCACCCACTTACAGCACAGGGAGTCAGT
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G53390.1 (Arabidopsis thaliana), 3'ss of exon 10
atcaatttaaaaaaaatcgtatttatacattttgttg-ttctgctccacatg-tcttca--tgtccatgttgaaccattgtgcaacttgtctttctgtgag----cagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
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-------accatagactcctacgatttcagtctcttgattctcctatatatgatctgcaagtgtcttgcctcatacacactgctgctt-tcttctgctgaatccccagGACACACAGTTACTTCTCTGGGACCTTGAGATGGACGAGATCGTAGTTCCACTTAGGCGAGCTCCAGGAGGATCTCCAACTTACAGCACAGGAAGCTCAGMapped 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|30301922|gb|CB978716.1|CB978716EST: AGATGGCACGGGGGAAAATGTTGTGTACCGTTGATCNT-CTGTTGGTCAG GACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTACCA
genomic: AGATGGCACGGGGGAAAATATTGTGTATCGTTT-TGGTTCTGTTGGTCAGgtatgcaaaa ... ctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacatgtcttcatgtccatgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
cttgtctttct CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcaatttaaaaaaaatcgtatttatacattttgttgttctgctccacatgtcttcatgtccatgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - ctccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - cttcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgtt