Sequence
atgc intronic sequence ATGC exonic sequence...ctcttagtagaaagaaaactatttttcgtagggtgttgaatcagtgccttattttgtgactgaattgggttagtttttcttacccttcactttgttgcagGATTATTTGAACGTGAAATTCAAGGAGACTGGCCACAGCAACATGTATTTCCCGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G107089_T01 (Zea mays), 3'ss of exon 1
---ctcttagtagaaagaaaactatttttcgtagggtgttgaa----tcagtgccttattttgtgactgaattgggttagtttttcttacccttcactttgttgcagGATTATTTGAACGTGAAATTCAAGGAGACTGGCCACAGCAACATGTATTTCCCGCAG
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actgtttggctttacatctgaatgctcctcttgttatgtgatacttttcagtgttgcacttcatcaatacctcaat---atttttgttgcc----gatttgttgtagGATTATTTGAATGTCAAATTCAAGGAGACAGGGCACAGCAACATGTACTTCCCTCAG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G24670.1 (Glycine max), 3'ss of exon 1
ctcttagtagaaagaaaactatttttcgtagggtgttgaatcagtgccttattttgtgactgaattgggttagtttt-tcttacccttcactttgt-tgcagGATTATTTGAACGTGAAATTCAAGGAGACTGGCCACAGCAACATGTATTTCCCGCAG
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--------------------gttccttctcaatttctcgccacgtgtccc-ttttcttttcaatttatgtcatttttattttatttgtttctgtgtgtgcagGAGTATTTGAATGTGAAGTTCAAGGAGACTGGACATAGTAACATGTATTTTCCGCAG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G29890.1 (Glycine max), 3'ss of exon 1
ctcttagtagaaagaaaactatttttcgtagggtgttgaatcagtgccttattttgtgactgaattgggttagtttttcttacccttcactttgt-tgcagGATTATTTGAACGTGAAATTCAAGGAGACTGGCCACAGCAACATGTATTTCCCGCAG
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--------------------gttccttctcaaattctcgccacgtgtccc-ttttctgttcaatttgtgtaattttcatttatttgtttctgtgtgcgcagGAGTATTTGAATGTGAAGTTCAAGGAGACCGGACATAGTAACATGTATTTTCCGCAG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G52520.1 (Arabidopsis thaliana), 3'ss of exon 1
ctcttagtagaaagaaaactatttttcgtagggtgttgaatcagtgccttattttgtgactgaattgggttagtttttcttacccttcactttgttgcagGATTATTTGAACGTGAAATTCAAGGAGACTGGCCACAGCAACATGTATTTCCCGCAG
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---------gtgaaaaaattgtggattcaaa----ttgattttgaatgttgatgtttcttcgtatcgcctcaattttcgttgtgaattg--ttgatgcagGATTATTTGAATGTGAAGTTCAAAGAGACTGGTCATAGCAACATGTACTTCCCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccttattttgtgactgaattgggttagtttttcttacccttcactttgttgcagGATTATTTGAACGTGAAATTCAAGGAGACTGGCCACAGCAACATGTATTTCCCGCAG
ttcttac putative branch site (score: 2)
tttttcttacccttca CT-rich tract
ttagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcttagtagaaagaaaactatttttcgtagggtgttgaatcagtgccttattttgtgactgaattgggttagtttttcttacccttcactttgttgcagGATTATTTGAACGTGAAATTCAAGGAGACTGGCCACAGCAACATGTATTTCCCGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - -aagaaaa
- - - - - - - - - - - - - - - -ggtgttg
- - - - - - - - - - - - - - - - - - - - - - tgcctta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgactga