Sequence
atgc intronic sequence ATGC exonic sequence...ttgttgtgtatgaaaactatattggatgctatcagcgggcatttgacaagtccttgctggtctattcttctaagaatttggcagtccttgtgatttgcagGTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGTCCAGGATTCTCTCTGGATGCAAAAAACTCTAAGGATACTAATGCTGCGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G23840.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------------ttgttgtgtatgaaaactatattggat-gctatcagcgggcatttgacaagtccttgctggtctattcttctaagaatttggcagtccttg---tgatttgcagGTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGTCCAGGATTCTCTCTGGATGCAAAAAACTCTAAGGATACTAATGCTGCGA
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gtatccactaaaacttcacgtggctttttaaccctttgcattttcccattcatccacacccccccccccccccaaaaaaaaatgattatgttttagttttattgcaaataatatcatgtcttgtt--ttagttttcttacgcacttttttgtgtgggggctgacttgcagGTCAGGCATTATTACTACCGACTTGTGAGACGGATGAACAAACTTCTTGGTCCAGGATTATGTTTGGATGCCAAAAACTCTAAAGATACTAATGCTGCAA
upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G05420.1 (Glycine max), 3'ss of exon 4
ttgttgtgtatgaaaactat-attggatgctatcagcgggcatttgacaagtccttgctggtctattcttctaagaatttggcagtccttgtgatttgcagGTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGTCCAGGATTCTCTCTGGATGCAAAAAACTCTAAGGATACTAATGCTGCGA
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---gtatccattacaactcccatttattgcaaataatat---catgacttgttttagttttcttacgtttttttccgggtgggggc-----tgacttgcagGTCAGGCATTATTACTACCGACTTGTGAGACGGATGAACAAACTTCTTGGTCCAGGATTATGTTTGGATGCCAAAAACTCTAAAGATACTAATGCTGCAA
upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G36960.3 (Arabidopsis thaliana), 3'ss of exon 4
-ttgttgtgtatgaaaactatatt-ggatgctatcagcgggcatttgacaagtccttgctggtctattcttctaagaatttggcag-tccttgtgatttgcagGTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGTCCAGGATTCTCTCTGGATGCAAAAAACTCTAAGGATACTAATGCTGCGA
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gttggt-tgttttagttttgtgtttgttttcttttcgcttgcacttg-ctggtgtttgct--tttagtttctgatggttgtggaaacttcttgtgatttgcagGTCAGGCATTACTATTATCGTTTAGTGAGGCGTATGAACAAACTTTTGGGCCCGGATCTGAGCCTTGATGCCAAGAACCCAAAGGACACCAATGCTGCAAMapped 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|28963174|gb|CB342207.1|CB342207EST: AATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG GTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGT
genomic: AATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAGgtgacgttct ... tgatttgcagGTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaagtccttgctggtctattcttctaagaatttggcagtccttgtgatttgcagGTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGTCCAGGATTCTCTCTGGATGCAAAAAACTCTAAGGATACTAATGCTGCGA
atttgac putative branch site (score: 4)
tccttgt putative PPT
taagaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttgtgtatgaaaactatattggatgctatcagcgggcatttgacaagtccttgctggtctattcttctaagaatttggcagtccttgtgatttgcagGTTAGACATTATTACTATCGTCTGGTGAGGCGTATGAACAAGCTGTTAGGTCCAGGATTCTCTCTGGATGCAAAAAACTCTAAGGATACTAATGCTGCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - -gtgtatg
- - - - - - aaaacta
- - - - - - - - - - - -ggatgct
- - - - - - - - - - - - - - - - - gcgggca
- - - - - - - - - - - - - - - - - - - - - - - caagtcc
- - - - - - - - - - - - - - - - - - - - - - - - - - -ttgctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcagtc