Sequence
atgc intronic sequence ATGC exonic sequence...ttatggcttctatataatcatattttcttatttgatagaattccttgtcaaatgttttgccttttggaagcaaatcttaatgcatgctattgatattcagGTTTGTGCTGGACTTTTAACCCGTCTTCAAGAATGCAAATCTGAAAATGCACAGTTGGAAGAACTTCTCACTGCAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G055219_T01 (Zea mays), 3'ss of exon 5
---------------------------ttatggcttctatataatcatattttcttatttgatagaattccttgtcaaatgttttgccttttggaagcaaatcttaatgcatgct--------attgatattcagGTTTGTGCTGGACTTTTAACCCGTCTTCAAGAATGCAAATCTGAAAATGCACAGTTGGAAGAACTTCTCACTGCAGAG
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gtaaggataagcataagctcaattgcctcacaactcacactcgatc---tatgttggttagctctgtttttttgttcgtttgttttcaacttaccaacatgttcttttgcccatttgttttcaacttacgaatagGTTTGTGCTGGACTTTCATCCCGCCTCCAAGAGTATAAGTCTGAAAATGCACAGCTGGAGGAACTTCTTGTTCAAGAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G01230.1 (Glycine max), 3'ss of exon 7
ttatggcttctatataatcatattttcttatttgatagaattccttgtcaaatgttttgccttttggaagcaaatcttaatgcatgctattgatattcagGTTTGTGCTGGACTTTTAACCCGTCTTCAAGAATGCAAATCTGAAAATGCACAGTTGGAAGAACTTCTCACTGCAGAG
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-------------gtaagggtgtttcttaaaccaataaaat--cttcctaattgctta---ttatagatgcctga-ttaatatttcctaatgatgctcagGTCTGTGCTGGATTGTCATCCCGTCTTCAAGAATACAAATCTGAAAATGCACAGTTGGAGGAACTTCTCACTTCAGAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G08430.1 (Glycine max), 3'ss of exon 5
ttatggcttctatataatcatattttcttatttgatagaattccttgtcaaatgttttgccttttggaagcaaatcttaatgcatgctattgatattcagGTTTGTGCTGGACTTTTAACCCGTCTTCAAGAATGCAAATCTGAAAATGCACAGTTGGAAGAACTTCTCACTGCAGAG
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-------------gtaagggtgttgcttaaaccaataaaat--ctttctaattgctta---ttatagatgcctga-ttattatttcctaatgatgctcagGTCTGTGCTGGATTGTCATCCCGTCTTCAAGAATACAAATCTGAAAATGCACAGTTGGAGGAACTTCTCACTTCAGAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G19950.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------ttatggcttctatataatcatattttcttatttgatagaattccttgtcaaatgttttgccttttggaagcaaatcttaatgcatgc--------tattgatattc----agGTTTGTGCTGGACTTTTAACCCGTCTTCAAGAATGCAAATCTGAAAATGCACAGTTGGAAGAACTTCTCACTGCAGAG
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gtaagctcaaatatccattgctactttcctgcatcaaatt-tgtgataaagtactctttcatgcctgtggttggttctgagcaacctcagatgtatccattttttgtcttcattttcctctagGTTTGTGCTGGACTTTCGTCCCGTCTTCAAGAAATTAAAGCGGAAAATGCACAGTTGGAAGAGCTTCTCACTGCAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcaaatgttttgccttttggaagcaaatcttaatgcatgctattgatattcagGTTTGTGCTGGACTTTTAACCCGTCTTCAAGAATGCAAATCTGAAAATGCACAGTTGGAAGAACTTCTCACTGCAGAG
tattgat putative branch site (score: 3)
aaatcttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatggcttctatataatcatattttcttatttgatagaattccttgtcaaatgttttgccttttggaagcaaatcttaatgcatgctattgatattcagGTTTGTGCTGGACTTTTAACCCGTCTTCAAGAATGCAAATCTGAAAATGCACAGTTGGAAGAACTTCTCACTGCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
-tatggct
- - - - - - - - - - - - - - - - - - - - ttccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgct