Sequence
atgc intronic sequence ATGC exonic sequencegttaggaacacttaaattttgtaaagtgaaataatctaggaaattggaattaccctattagacattctatgtcagttgtgtctgtttgttgatcggtgtagtagttgtgtatgattagGAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAGGAGCGGGATGAATTTCAAAGGATGGTTATTGGTAATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------gttaggaacacttaaattttgtaaagtgaaataatctaggaaattggaattaccctattagacattctatgtcagttgtgtctgtttgtt-gatcggtgtagtagttgtgtatgattagGAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAGGAGCGGGATGAATTTCAAAGGATGGTTATTGGTAATCAG
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gtaaggagtgcttgtatttctggttttggcaaacctaaagcatgttattgtcttgcttagatgaaaagatta-gaagtgtgtctgttagtcaagatgtaacgatttccttatttatgcagtgatgctactagatttttgtttaatttgggtag-aattccttttatatagGAGGCTAAAAACACTGCAGCTCTGAAGGCTCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTTCAGAGAATGGTTATTGGTAATCAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G07040.2 (Glycine max), 3'ss of exon 5
-----------------------------------gttaggaacacttaaattttg-taaagtgaaataatctaggaaattggaattaccc----tattagacattctatgt-----cagttgtgtc------tgtttgttgatcggtgtagtagttgtgtatgattagGAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAGGAGCGGGATGAATTTCAAAGGATGGTTATTGGTAATCAG
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gtaaggagatgcttggaaatctggttttggcaaacgtaaagcatgctattgtcttgcttagatgaaaagatcagaagtgtgtccattatgcaagatgcaacaatttccttttttacgcagtgatgctgctagattttgtttaactggggttgaattcctgt-tatttagGAAGCTAAAAACACTGCAGCTCTGAAGGCCCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G57410.3 (Arabidopsis thaliana), 3'ss of exon 5
gttaggaacacttaaattttgtaaagtgaaataatctaggaaattggaattaccctattagacattctatgtcagttgtgtctgtttgttgatcggtgtagtagttgtgtatgattagGAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAGGAGCGGGATGAATTTCAAAGGATGGTTATTGGTAATCAG
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-------------------------------------gtgagtcctataaagtttcagctgaaatt--gttttcgcttaggctcttgtttgatta-tgaattcactgtgt-tgac-agGAAGCCAAAAACACTGCAGCTTTGAAGTCTCAGATTGAAAAGTTACAGCAGGAGAGGGATGAATTCCAAAGGATGGTGATTGGTAACCAGMapped 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|294964330|gb|GW838133.1|GW838133EST: AGTCACAGTTACAAGCAAAAGATAGGGAGATTGCAACCATGACCCGGACG GAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAG
genomic: AGTCACAGTTACAAGCAAAAGATAGGGAGATTGCAACCATGACCCGGACGgttaggaaca ... gtatgattagGAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attctatgtcagttgtgtctgtttgttgatcggtgtagtagttgtgtatgattagGAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAGGAGCGGGATGAATTTCAAAGGATGGTTATTGGTAATCAG
tgttgat putative branch site (score: 4)
tatgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaggaacacttaaattttgtaaagtgaaataatctaggaaattggaattaccctattagacattctatgtcagttgtgtctgtttgttgatcggtgtagtagttgtgtatgattagGAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAGGAGCGGGATGAATTTCAAAGGATGGTTATTGGTAATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG