Sequence
atgc intronic sequence ATGC exonic sequencegtttgaaattcattttcatatttacctgtggacatattttgcaactgatggggcaggaaagtatagtgataataatggaatacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os05g01470.1 (Oryza sativa), 3'ss of exon 6
gtttgaaattcattttcatatttac-ctgtggacatattttgcaactgatggggcaggaaagtatagtgataataatggaatacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC
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------------gttccttgtgtattctttagat---ttctaaaagcaatgtaat-gacaggaaaaatactaat--tcatata-actttcagGTGAAGAAAATATTTGAGTTTCTTAAAGATGGGTTCCATGAAGTCAGCAGCTCCCTGGATTTGTCTTTTGATGATGATTCTGTTGCTGACGAAAAAATAC
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G098039_T01 (Zea mays), 3'ss of exon 6
gtttgaaattcattttcatatttacctgtggacatattttgcaactgatggggcaggaaagtatagtgataataatggaatacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC
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--------gttacttttgtgttctctaatgatctctaagagtaa-taatgtgacagttgga-atagtactcttatt--attgaactttcagGTGAAGAAAATATTTGAGTTTCTTAAAGATGGATTCCATGAAGTCAGCAGTTCCCTTGATTTATCCTTTGACGATGATTCTGTAGCTGAGGAAAAAATTC
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G28490.1 (Glycine max), 3'ss of exon 6
-----gt-ttgaaattcattttcatatttacctgtggacatattttgcaactgatggggcaggaaagtatagtgataataatgga-atacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC
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gtggggtacttcggtaaagcttgttaattcactacaagaatatttatttcc--atgg---aggaaatttgatgcacaatgtcgtttgtatactgacagGTTAAAGTTATATTTGATTTTCTAAAACATGGATTTCAAGAGATCAGCAGCTCCCTAGATTTGTCTTTTGAGGACGATTCTGTTGCTGATGAGAAGATTC
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 6
gtttga-aattcatt-----ttcatatttacctgtggacatattttgcaactgatggggcaggaaagtatagtgataataatggaatacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC
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gtggggtacttcattaaagcttggtaattcactacaagaatattt----attgccatggaggaaatttgatgcactaggtcatttgtatactgacagGTTAAAGCTATTTTTGATTTTCTAAAACATGGATTTCAAGAGATCGGCAGCTCCCTCGATTTGTCTTTTGAGGACGATTCTGTTGCTGATGAGAAGATTCMapped 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|71857495|gb|DT006550.1|DT006550EST: TTTCTCATGCTTTATCAGTTTACAGCTGTCAACTTCGTCAACCAAATCAG GTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGT
genomic: TTTCTCATGCTTTATCAGTTTACAGCTGTCAACTTCGTCAACCAAATCAGgtttgaaatt ... acactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgcaactgatggggcaggaaagtatagtgataataatggaatacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC
aactgat putative branch site (score: 3)
tatagtgataataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaaattcattttcatatttacctgtggacatattttgcaactgatggggcaggaaagtatagtgataataatggaatacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT