Sequence
atgc intronic sequence ATGC exonic sequence...actttttgtgcatgtttttttttttttttttttcatacaagtgtttctcccatgaccttttgtatgtgtcattcctgatgcataattatgtttgttgtagGAAATTGCATGCTACATGGGCCTGGAGCTGGGAAAAATAAACATAAAACGCTTTGCTGATGGAGAGATTTATGTTCAGTTGCAAGAGAGTGTTAGAGGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G038791_T01 (Zea mays), 3'ss of exon 2
actttttgtgcatgtttttttttttttttttttcat--acaagtgtttctcccatgaccttttgtatgtgtcattcctgatgcataattatgtttgttgtagGAAATTGCATGCTACATGGGCCTGGAGCTGGGAAAAATAAACATAAAACGCTTTGCTGATGGAGAGATTTATGTTCAGTTGCAAGAGAGTGTTAGAGGGT
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--cctcaatagatttttaatgacgaataattataaacaggaaatatgttatctcgttcatgcctaataatttctttatggtatcctgtatttttatgaacagGAGATAGCAAGTTACTTGGGGCTAGAACTTGGGAAGATAACCATAAAGAGGTTTGCTGATGGTGAAATATATGTTCAGTTGCAAGAAAGTGTACGGGGCT
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 2
-----actttttgtgcatgttttttttt----ttttttttttcatacaagtgtttctcccatgaccttttgtatgtgtcattcctgatgcataattatgtttgttgtagGAAATTGCATGCTACATGGGCCTGGAGCTGGGAAAAATAAACATAAAACGCTTTGCTGATGGAGAGATTTATGTTCAGTTGCAAGAGAGTGTTAGAGGGT
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aatatacttttgttgtttattaatatttgaagtcttatgttatacaccagatagtctctaattatttctgaaatgtttgattttgcatgtat--ttaagt-------agGAAATTGCATGCTACCTGGGCCTGGAGCTAGGAAAAATTAAGATAAAGCGTTTTGCTGATGGTGAGATATATGTCCAGCTGCAAGAGAGTGTCAGGGGGT
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 2
actttttgtgcatgtttttttttttttttttttcata-caagtgtttctcccatgaccttttgtatgtgtcattcctgatgcataatt---atgt-ttgttgtagGAAATTGCATGCTACATGGGCCTGGAGCTGGGAAAAATAAACATAAAACGCTTTGCTGATGGAGAGATTTATGTTCAGTTGCAAGAGAGTGTTAGAGGGT
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-----ttgaatatacttttatttattaatatttgaagtcttatgttatacagtagatagtctttaattatttactgaaatgtttgatttgcatgtatttaagtagGAAATTGCATGCTACCTGGGCCTGGAGCTAGGAAAAACTAAGATAAAGCGTTTTGCTGATGGTGAGATATATGTCCAGCTGCAAGAGAGTGTCAGGGGGT
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G44530.2 (Arabidopsis thaliana), 3'ss of exon 2
-----actttttgtgcatgtttttttttttttttttttcatacaagtgtttctcccatgaccttttgtatgtgtcattcctgatgcataattatgtttgttgtagGAAATTGCATGCTACATGGGCCTGGAGCTGGGAAAAATAAACATAAAACGCTTTGCTGATGGAGAGATTTATGTTCAGTTGCAAGAGAGTGTTAGAGGGT
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atttgttcaattgcaaagattaggattaggaagaaattggtttagagtatattctggaatcgtcttgtttgt-tcattggtgttttacgctgatgat----acagGAGATTTCTTGCTATTTGGGTCTGGACCTTGGGAAAATCAAGATTAAACGCTTTGCTGATGGTGAGATCTATGTTCAGCTACAAGAGAGTGTAAGGGGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcccatgaccttttgtatgtgtcattcctgatgcataattatgtttgttgtagGAAATTGCATGCTACATGGGCCTGGAGCTGGGAAAAATAAACATAAAACGCTTTGCTGATGGAGAGATTTATGTTCAGTTGCAAGAGAGTGTTAGAGGGT
tcctgat putative branch site (score: 3)
ataattatgtttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actttttgtgcatgtttttttttttttttttttcatacaagtgtttctcccatgaccttttgtatgtgtcattcctgatgcataattatgtttgttgtagGAAATTGCATGCTACATGGGCCTGGAGCTGGGAAAAATAAACATAAAACGCTTTGCTGATGGAGAGATTTATGTTCAGTTGCAAGAGAGTGTTAGAGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - -gcatgtt
- - - - - - - - - - - - - - - - -catacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcattcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgcat