Sequence
atgc intronic sequence ATGC exonic sequence...ttgctcattgattttaacctacttgacttaacaatcatgtactgtatactccttattaagctagatatgtctttattgggttgttgtattcatctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G017305_T02 (Zea mays), 3'ss of exon 3
ttgctcattgattttaacctacttgacttaacaatcatgtactgt-atactccttattaagctagatatgtctttattgggttgttgtatt---catctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
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----tcaatgattgtgccatatcttcagtggcttcttgttattgccgtgcctccttttatatgacagataacgttactgctctacctccttttatatctgacagATAGCCGCAGATGTTAACATCGACGAGGTTGCTCGGAGGACAGAAGGCTATAGTGGAGATGATCTGACAAACGTTTGCCGCGATGCCTCAATGAATGGCA
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G054715_T07 (Zea mays), 3'ss of exon 1
ttgctcattgattttaacctacttgacttaacaatca-tgtactgtatactccttattaagctagatatgtct-ttattgggttgttgtattcatct-atcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
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--actactctaattccatacatttggattgtcaattactgtgtcatatcttcagtggcttatt-gttatttctgttattctgtacctccttttgtctcaacagATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTATAGTGGAGATGACTTGACAAATGTTTGCCGTGATGCTTCAATGAACGGTA
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G22210.1 (Glycine max), 3'ss of exon 6
ttgctcattgattttaacctacttg-acttaacaatcatgtactgtatactccttattaagctagatatgtctttattg--ggttgttgtattcatctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
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tcagtcactaaacttactgtgagaacagtttatggaaagg-gcagcagaatcatgat--gctaaaacttattattattgctgattgtacttgtctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G03820.1 (Glycine max), 3'ss of exon 6
---ttgctcattgattttaacctacttgacttaacaatcatgtactgtatactccttattaagctagatatgtctttattgggttgttgtattcatctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
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actgtgagaacagtttatggaaagggcagcagaataatgatgc-taaaacttggattattga-ttattgttattattgctga-ttgtacttgtctttcaccagGTGGCACCTGATGTCAATATAGACGAAGTGGCTCGCCGGACAGAGGGATATAGTGGAGATGATTTGACAAATGTCTGTCGCGATGCTTCCTTGAATGGTA
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G43840.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------ttgctcattgattttaacctacttgacttaacaatcatgtactgtat---actccttattaagctagatatgtctttattgggttgttgtattcatctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
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gtagaggcaagttaggatgtgatttttagtatgaataataaaatgatttatgttatcttgagtag-aattcaagcatatatagtttaccataaacaaaatggatgaaattgagtgtttaagaagacatgcaataagtgtatagtgttg--caccatgcagGTGGCCCCTGATGTGAACATAGATGAAGTGGCTCGACGGACAGAGGGGTATAGTGGAGATGACTTGACAGATGTATGCCGTGATGCTTCCATGAATGGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactccttattaagctagatatgtctttattgggttgttgtattcatctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
ttcatct CT-rich tract
ttattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctcattgattttaacctacttgacttaacaatcatgtactgtatactccttattaagctagatatgtctttattgggttgttgtattcatctatcagGTGGCTCCTGATGTAAATATCGACGAAGTGGCTCGCCGCACTGAGGGGTACAGTGGAGATGATCTGACAAATGTTTGCCGGGATGCTTCCTTAAATGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - -aacctac
- - - - - - - - - - - - - - - - - -catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggttgt