Sequence
atgc intronic sequence ATGC exonic sequencegtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattgattaactgagatcaattgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os12g07450.2 (Oryza sativa), 3'ss of exon 7
gtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattgatta----actgagatca-attgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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gtacttcctttgtcccaatagtagatggttctttattccttatagaacccactgattctgtattgcttattaaaataacactataaaaccttatttagGTTATTTGAGAGTGTTTGACTTTTCGAAGGAGCAACTAATATTTGGTGGGAAAAGTTATTATGGTGCACTATTGTGTTGCACATGGAG
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G828139_T01 (Zea mays), 3'ss of exon 4
--gtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattg-attaactgagatcaa--ttgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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gtaaatttctctgcccaagaatg-agaatcgacagctttgtgaggtttagctgctggaaaagttctatattgcactaaaacaaccttatcttatgcagGTTATTTAAGAGTATTTGACTTCACGAAAGAACAACTAATATTTGGTGGGAAAAGTTACTATGGTGCACTGTTGTGTTGCTCTTGGAG
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G096070_T01 (Zea mays), 3'ss of exon 7
gtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaa-atagcattgattaactgagatcaattgctga-atgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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---gtacttgcttt---gccctaggcatctcaagcttttttagttcgt---tgtaagatttctttcttaaacaaacattgatcaacaatatgcagGTTATTTGAGAGTATTCGATTTTTCAAAGGAACAACTAATATTTGGTGGAAGAAGTTATTATGGTGCACTGTTGTGTTGCACTTGGAG
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 8
----gtatttcttgatt--ttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattgattaactgagatcaatt-gctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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gtatattttttttatccaactgcatcacattgttgtagttctttttttatttaattttcgttacaaaattatcttcatgaatttattttacttcattcagGTTATTTACGAGTGTTTGATTACTTAAAAGAACAACTTATATGTGGTGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCTTGGAG
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G36480.2 (Glycine max), 3'ss of exon 2
gtat-ttcttgatt---ttgcattttggggttgt------cctgctt-ttttggtttgtacatgtaaatagcattgattaactgagatcaattgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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gtatattcttaatccaattccatcctcactatgtattatatctacttattttcatattctttcaaagataacatc--tgaaattattttacttactgcatccagGTTATTTACGAGTGTTTGATTACTCAAAAGAACAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCTTGGAG
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 8
--gtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattgattaactgagatcaat--tgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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gtatattttttaatccaac-tcatcacattgtagttgttttttatttcatttttgtca-caaaattatcttcatga-atcaattttacttcattcagGTTATTTACGAGTATTTGATTACTTAAAAGAACAACTTATATGTGGTGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCTTGGAG
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 7
gtat-ttcttgatt---ttgcattt----tggggttgtcctgcttttttg---gtttgtacatgtaaatagcattgattaactgagatcaattgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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gtatatttttaatccaattccatcctcactgtgttatttctacttgttttcacatccttgcaaaaaaataacatctcaaaatt-attttacttactccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCATGGAG
upper sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattgattaactgagatcaattgctga----atgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
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gtatgatgggtttttgttttattgccggctccaattcttcctctctctatatatatctttcagttgagaattcattttctcttttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAGMapped 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: TGTTACCTTCTCAACTGATGGAGCCTATATTGCAACAGTCGGAAGAGATG GTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCA
genomic: TGTTACTTTCTCAACTGATGGAGCCTATATTGCAACAGTCGGAAGAGATGgtatttcttg ... ctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggtttgtacatgtaaatagcattgattaactgagatcaattgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
gattaac putative branch site (score: 2)
atgtaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattgattaactgagatcaattgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG