Sequence
atgc intronic sequence ATGC exonic sequence...ggctactcaaaacactgaagtggttggttttcttttattgaacagtttgccatgcttattatgcaaacactgaagtggttggttttcttttattgaacagTTTGCCATGCTTATTATGCCTAAGATGCATGAAAGATACATGCGTCCCTGAAGAGAAGATGTTCAGAGATCCAAGGAGGCTGTATGCACCTGGTCGCCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G37820.1 (Glycine max), 3'ss of exon 2
ggctactcaaaacactgaagtggttggttttcttttattgaacagTTTGCCATGCTTATTATGCAAACACTGAAGTGGTTGGTTTTCTTTT--ATTGAACAGTTTGCCATGCTTATTATGCCTAAGATGCATGAAAGATACATGCGTCCCTGAAGAGAAGATGTTCAGAGATCCAAGGAGGCTGTATGCACCTGGTCGCCTC
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agctacggttgtgatt--agttgaggtcaacaggtaatggaaatgattgtcacagtaattttaatgtttttatggtaagatatttttttcttggttttgcagTTTGCCATGCTTATTGTGCTTGAGGTGCATGAAGGATACATGCATACCAGAGGAGAAGATGCTGAAAGATCCAAGGAGACTCTATGCTCCCGGTCGCCTT
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G30140.1 (Glycine max), 3'ss of exon 3
ggctactcaaaacactgaagtggttggttttcttttattgaa--cagT-TTGCCATGCTTATTATGCAAACAC--TGAAGTGGTTGGTTTTCTTTTATTG--AACAGTTTGCCATGCTTATTATGCCTAAGATGCATGAAAGATACATGCGTCCCTGAAGAGAAGATGTTCAGAGATCCAAGGAGGCTGTATGCACCTGGTCGCCTC
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-------catactgtaaaaaagggttgctaacaattagtgaaaccaatatttgtgtaattttcatgtgttcatgttgatataatttgttttttgctgtggctggcagTTTGCCATGCCTATTGTGCTTGAGGTGCATGAGGGATACATGTATTCCAGAGGAGAAGATGCTCAGAGATCCCAGGAGACTCTATGCACCCGGTCGCCTT
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G25180.1 (Glycine max), 3'ss of exon 3
-ggctactcaaaacactgaagtggttggttttcttttattgaacagTT-TGCCATGCTTAT-TATGCAAACACTGAAGTGGTTGGTTTTCTTT-TATTGAACAGTTTGCCATGCTTATTATGCCTAAGATGCATGAAAGATACATGCGTCCCTGAAGAGAAGATGTTCAGAGATCCAAGGAGGCTGTATGCACCTGGTCGCCTC
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atgctat--aaaaaggtgataccaacgattag--tgaaaccattatttgtgttattttaatgtgttcataatttgtacttatactttttttctgtggctggcagTTTGCCATGCCTATTGTGCTTGAGGTGCATGAGGGATACATGTATTCCAGAGGAGAAGATGCTGAAAGATCCAAGGAGACTCTATGCACCTGGTCGCCTT
upper sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G49050.1 (Arabidopsis thaliana), 3'ss of exon 2
---ggctactcaaaacactgaagtggttggttttcttttattgaacagTTTGCCATGCTTATTATGCAAACACTGAAGTGGTTGGTTTTCTTTTATTGAACAGTTTGCCATGCTTATTATGCCTAAGATGCATGAAAGATACATGCGTCCCTGAAGAGAAGATGTTCAGAGATCCAAGGAGGCTGTATGCACCTGGTCGCCTC
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tgttagtatacatagctttggt-tagttcactttgttttgtagaacaccttccataactctgcttatttgtaatgggtt--ttgtttttttgtctgtggacagTTTGCCATGTTTGCTATGCATAAGGTGCATGAAGGATACATGTGTTCCAGAGCAAAAGATGCTCAAAGATCCTAGACGGCTTTATGCTCCTGGTCGCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgccatgcttattatgcaaacactgaagtggttggttttcttttattgaacagTTTGCCATGCTTATTATGCCTAAGATGCATGAAAGATACATGCGTCCCTGAAGAGAAGATGTTCAGAGATCCAAGGAGGCTGTATGCACCTGGTCGCCTC
ttttcttttatt CT-rich tract
ttttcttttattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggctactcaaaacactgaagtggttggttttcttttattgaacagtttgccatgcttattatgcaaacactgaagtggttggttttcttttattgaacagTTTGCCATGCTTATTATGCCTAAGATGCATGAAAGATACATGCGTCCCTGAAGAGAAGATGTTCAGAGATCCAAGGAGGCTGTATGCACCTGGTCGCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - -caaaaca
- - - - - - - - - - tggttgg
- - - - - - - - - - - - - - - - - - - - - - - - -ccatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacac