Sequence
atgc intronic sequence ATGC exonic sequence...attacttttataggtttctcttattgatttattttattagtgttattagcattttcatgctagttttgtggttttcattctcacttcctaattgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAGCAGATGATTCAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g38930.1 (Oryza sativa), 3'ss of exon 1
---attacttttataggtttctcttattgatttattttattagtgttattagcattttcatgctagttttgtggttttcattctcacttcctaattgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAG-CA--GATGATTCAGGG
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gctgcctgatccatcataatttatacatgttcaaatttgttcata--gttgaaatttgtgtggtcaatgacttgctactaat-tcatgagttgttactatcagATTGTCTAGGCAGACGGTTAGGTCCACGGCTTCTTGGTAGGGGCAACGATGGCTCCATG
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G49960.1 (Glycine max), 3'ss of exon 1
attacttttataggtttctctta-ttgatttattttattagtgttattagcattttcatgctagttttgtggttttcattc-tcacttcctaattgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAGCAGATGATTCAGGG
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--tacttggattagattctgaaagtttattatttgtgccttttttatgtcttaccttgtgcctgttttaaaccatttattgactacttattttgttctccagATTGTTTAGGTAGGCGGTTGGGACCAAGGCTTCTTGGGAGGGCTGATGATTCAGGG
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 1
attacttttataggtttctcttattgatttattttattagtgttattagcattttcatgctagttttgtggttttcattctcacttcctaat---tgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAGCAGATGATTCAGGG
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--tacttggattaggttctgaaagtttattattt-gtgccttttttatgtctcaccacgtgccttttatagaccattgattaactccttattttgtgcctcagATTGTTTAGGTAGGCGGTTGGGACCGAGGCTTCTTGGTAGGGTTGACGATTCAGGG
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G03460.1 (Glycine max), 3'ss of exon 1
attacttttataggtttctcttattgatttattttattagtgttattagcatttt---catgctagttttgtggttttcattctcacttcctaattgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAGCAGATGATTCAGGG
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-ccatattcttaaagtcgattgttttgtacatattaatatcatgtctcaccttttgtctatttttgatccatgattgttttttttttttttt--ttgctccagATTGTTTAGGTAGGCGGTTGGGACCAAAGCTTCTTGGTAGGGTTGATGATCCGGCG
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G05950.1 (Glycine max), 3'ss of exon 1
attacttttataggt-ttctcttattgatttattttattagtgttattagcattttcatgctagttttgtggttttcattctcactt--cctaattgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAGCAGATGATTCAGGG
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--ttcatttacccatattctgaaagtcaattgctttgtacatattaatattatgtct-caccttttgtctatttttgatccttgattggttttttcgctccagATTGTTTAGGTAGGCGGTTGGGACCAAAGCTTCTTGGTAGGGTTGATGATCCAGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagcattttcatgctagttttgtggttttcattctcacttcctaattgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAGCAGATGATTCAGGG
tcctaat putative branch site (score: 2)
attttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attacttttataggtttctcttattgatttattttattagtgttattagcattttcatgctagttttgtggttttcattctcacttcctaattgtgtcagATTGTCTAGGCAGGCGGTTGGGACCAAGGCTTCTTGGTCGAGCAGATGATTCAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgct