Sequence
atgc intronic sequence ATGC exonic sequencegtgagatcgcctttttcatagttaattccttcaaactcttccttgaactgttgcttgacgctaatatcaaataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G034622_T01 (Zea mays), 3'ss of exon 5
gtgagatcgcctttttcatagttaattccttcaaactcttccttgaactgttgcttgacgctaatatcaaataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
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gtaaaaagacagtagtcaatattcatatcattggatgcattaggaggct-ttgctaaatgttt-tcctggtttctatcaat---agATCCGTGCACAAAGTACACACTTCTTGAGAGGTTTTCAGCAGCTTATACCAAAAGATTGGATTGATATGTTCAATGAACATGAAATTCAG
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G095887_T02 (Zea mays), 3'ss of exon 1
gtgagatcgcctttttcatagttaattccttcaaactcttccttgaactgttgcttgacgctaatatcaaataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
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gtaaaaagaaagtagtcaatagtcatatcattggatgcattaggaggct-ttgctaaatgttt-tcctggtttctatcaat---agATCCGTGCACAAAGTACACACTTCTTGAGAGGTTTTCAACAGCTTATACCAAAAGATTGGATTGATATGTTCAATGAACATGAAATTCAG
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA17G04180.1 (Glycine max), 3'ss of exon 20
--gtgagatcgcctttttcatagttaattc----cttcaaactcttcc--------ttgaactgttgcttgacgctaatatcaaataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
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ctctattatggctctatctctagccaaagtgacacttgggttttttccaatgcaaatcaacccatgtttcaattacagaataaaataattatgttttcagATACGCCAACAAAGTTCACATTTCTTGAGGGGATTTCAGCAACTTATGCAGAAGGATTGGATTGACATGTTTAATGAACATGAACTTCAG
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA07G36390.1 (Glycine max), 3'ss of exon 20
-----gtgagatcgcctttt----tcatagttaattccttcaaactcttccttgaactgttgcttgacgctaatatca-----aataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
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tatatactctatctctatctgatgtgacacttgggtttttccaaatgcaaatcaactcatgtttcaattacaataataataataataattatgttttcagATACGCCAACAAAGTTCACATTTCTTGAGGGGATTTCAGCAACTTATTCAGAAGGATTGGATTGACATGTTTAATGAACATGAACTTCAG
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA09G03680.1 (Glycine max), 3'ss of exon 8
------------gtgagatc---gcctttttcatagttaattccttcaaactcttccttgaactgttgcttgacgctaatatcaaataacatcacttt--cagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
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aaatttacccaagcagggcttaaatttgtttcaatttgaattgcatctcacggtgact-gtttttatgctt--ccattatactaaatataattattgtattagATACGTCAACAAAGTTCAAATTTCTTGAGAGGACTTCAGCAACTTATTCAGAAGGATTGGATTGATATGTGTAATGAGCATGAACTTCAG
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT3G17205.2 (Arabidopsis thaliana), 3'ss of exon 20
-----gtgagatcgcctttttcatagttaattccttcaaactcttccttgaactgttgcttgacgctaatatcaaataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
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gtactggggaaccacttacctctcattta-tcttggcatacctgaggtcaccctgtaaatcaacagctat-tgatatcatctcatttgcagATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGMapped 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|110417942|gb|EC984047.1|EC984047EST: ATGTCATCACATTTATTCATCTTATAGCAAACCATCGTTTGAATTTTCAG ATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAA
genomic: ATGTCATCACATTTATTCATCTTATAGCAAACCATCGTTTGAATTTTCAGgtgagatcgc ... tcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAA
EST:
gi|110370035|gb|EC934210.1|EC934210EST: ATGTCATCACATTTATTCATCTTATAGCAAACCATCGTTTGAATTTTCAG ATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAA
genomic: ATGTCATCACATTTATTCATCTTATAGCAAACCATCGTTTGAATTTTCAGgtgagatcgc ... tcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaactcttccttgaactgttgcttgacgctaatatcaaataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
aaataac putative branch site (score: 2)
tcactttc CT-rich tract
taatatcaaataacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatcgcctttttcatagttaattccttcaaactcttccttgaactgttgcttgacgctaatatcaaataacatcactttcagATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA