Sequence
atgc intronic sequence ATGC exonic sequence...ctatattctctgtttttcagacattttttttcctcactccaagatttgttcttgatgtagcaatttgctacaagtactgaatgtgatatttgtaatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G04360.1 (Glycine max), 3'ss of exon 3
ctatattctctgtttttcagacattttttttcctcactccaagatttgttcttgatgtagc-aatttgctacaagtactgaatgtga------tatttgt---aatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
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----------catcctcatgcaaatttgggcaaacaccctagaatgttgttttgatatggttaatttagtagggatattgatgataaggatcttatttttggaaatgcagATGTGGATTGCGAAGGCAGAGTATGATGAGTCTGGTCCTTCAATTGTACACAGGAAATGCTTTTAAATGCAGCAGAATGGCTTGGTGTAGGTACAGCGTC
upper sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G06820.1 (Glycine max), 3'ss of exon 4
ctatattctctgtttttcagac---attttttttcctcactccaagattt--gttcttgatgtagcaatttgctacaagtactgaatgtgatatttgtaatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAAT-TGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
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-----ttttcttccttttagttctagtttcggttccctgatcaaatatcccagtaagttaaatataatgccagtagcataataggacatcatgtttgaaatgcagATGTGGATTGCAAAGGCTGAGTATGATGAGGCTGGTCCTTCAATTGTACACAGGAAATGCTTCTGAATGTTGCAAGGTGGCTTGGTGAAAGAAAATACGG-
upper sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G14880.1 (Glycine max), 3'ss of exon 3
----ctatattctctgtttttcagacattttttttcctcactccaagatttgttcttgatgtagcaatttgctacaagtact-gaatgtgatatttgtaatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAAT--TGGCCAG---ATGGGGGAGGTAGAAGAAAGCCAGT
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ttagttctagtttc-gattcccagatcaattatccctatattgccagttgcatc----atgtggtgttgggatactaatattaggacatcatgtttgaaatgcagATGTGGATTGCAAAGGCTGAGTACGATGAGGCTGGTCCTTCAATTGTACACAGGAAATGCTTCTAAATGCTGCACAGCCTACAGGGTAGCTTGGTGAAAG-----
upper sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G41060.1 (Glycine max), 3'ss of exon 3
ctatattctctgtttttcagacattttttttcctcactccaagatttgttcttgatgtag-caatttgctacaagtactga--atgtgatatttgt-------aatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
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--------tcatgcatttgtgcactccccctagaaatt--agaatgttgttttgatatggtcaatttagtagggatattaatgatgaggcacttgtttttggaaatgcagATGTGGATTGCGAAGGCAGAGTACGATGAGTCCGGTCCTTCAATTGTACACAGGAAATGCTTTTGA----------------------------------
upper sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 3'ss of exon 4
ctatattctctgtttttcagacattttttttcct-cactccaagatttgttcttgatgtagcaatttgctacaagtactg-aatgtgatatttgtaatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGC-CAGT-
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gtatttcttttatattacagttgcttagttgcatgcataatctgatttttatattacttttttgcattttatctgcattttgacgtgttggggtttttgcagATGTGGATCGCGAAGTCGGAGTACGACGAATCCGGCCCATCAATTGTGCATCGGAAATGCTTTTAGAC--GCGTGGTGATGGAGTCTTTTTTTATCACCGTG
upper sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ35077 (Selaginella moellendorffii), 3'ss of exon 3
ctatattctctgtttttcagacattttttttcctcactccaagatttgttcttgatgtagcaatttgctacaagtactgaatgtgatatttgtaat--gcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
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---------------------------------gtaccacaacattcttt-----tgctcgtttttcttatcagccttgtttttctttttcttttttcgcagATGTGGATTGCAAAGTCCGAGTACGATGAGTCGGGTCCATCGATTGTGCACAGAAAGTGCTTCTAG----------------------------------
upper sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 3
ctatattctctgtttttcagacattttttttcctcactccaagatttgttcttgatgtagcaatttgctacaagtactgaatgtgatatttgtaat--gcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
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---------------------------------gtaccacaacattcttt-----tgctcgtttttcttatcagccttgtttttctttttcgtttctcgcagATGTGGATTGCAAAGTCCGAGTACGATGAGTCGGGTCCATCGATTGTGCACAGAAAGTGCTTCTAG---------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttcttgatgtagcaatttgctacaagtactgaatgtgatatttgtaatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
tcttgat putative branch site (score: 4)
atatttgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctatattctctgtttttcagacattttttttcctcactccaagatttgttcttgatgtagcaatttgctacaagtactgaatgtgatatttgtaatgcagATGTGGATAGCAAAGGCAGAGTATGATGAATCTGGGCCATCTATTGTGCATAGGAAATGCTTCTAAATTGGCCAGATGGGGGAGGTAGAAGAAAGCCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - ctcactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgtg