Sequence
atgc intronic sequence ATGC exonic sequence...aaaccatgtcatccctttgtatgaagcaaaatttgaaatgggctagtttggttgttttaattgcagaaactgattctgttttataatgtggtaatttcagACTCACATCCACATAATCCCTCGTAAGGCAAGAGATTGCTTATGGACTTCTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0757g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G45960.1 (Glycine max), 3'ss of exon 5
----------aaaccatgtcatccctt-----tgtatgaagcaaaatttgaaatgggctagtttggttgtt-ttaattgcagaaactgattctgttt--tataatgtggtaatttcagACTCACATCCACATAATCCCTCGTAAGGCAAGAGATTGCTTATGGACTTCTGAG
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gtaagattttagatcatactgtcacttgcacttttatggaatcatacatttatttttccctctacatcactgctaattctgaaatgtggcttattttgccataaaatgtacatttcagACGCATATGCACATAATTCCTCGTAAAGCATATGATTGCTTATGGGCTTCTGAG
upper sequence: Vv00s0757g00030.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G48545.1 (Arabidopsis thaliana), 3'ss of exon 5
aaaccatgtcatccctttgtatgaagcaaaatttgaaatgggctagtttggttgttt--taattgcagaaactgattctg-----ttttataatgtggtaatttcagACTCACATCCACATAATCCCTCGTAAGGCAAGAGATTGCTTATGGACTTCTGAG
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--------------gttagcacatactgacttccccaactttccatttctcttatttcttgacgaaggaagtttctactaacagttccttttttgtttgcatttcagACACACATTCACATAATCCCGCGTAAGGAACGTGACTGCTTATGGGCTTCCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttggttgttttaattgcagaaactgattctgttttataatgtggtaatttcagACTCACATCCACATAATCCCTCGTAAGGCAAGAGATTGCTTATGGACTTCTGAG
aactgat putative branch site (score: 3)
attctgttttataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaccatgtcatccctttgtatgaagcaaaatttgaaatgggctagtttggttgttttaattgcagaaactgattctgttttataatgtggtaatttcagACTCACATCCACATAATCCCTCGTAAGGCAAGAGATTGCTTATGGACTTCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
aaaccat
- - - - tcatccc
- - - - - - - - - - - -aagcaaa
- - - - - - - - - - - - - - - - - - - -gggctag
- - - - - - - - - - - - - - - - - - - - - - - - tggttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagaaac