Sequence
atgc intronic sequence ATGC exonic sequencegtctaaattaattttttgtgcatctaataaaaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os02g58590.1 (Oryza sativa), 3'ss of exon 13
---------gtctaaattaattttttgtgcatcta-ataaaaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
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atatctttactgttgcctactaatttttatattagcatatacaatattttccatctaccatatatttcttccttaacaagactttacTTATTGGGATGACTGGGTGAGGCTAAAAGAGGTACACAGAGACCGGCAATTTATTCGCCCGGAAGTCTGCAGAACATACAATTTTGGCGAACAT
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 13
----------------------gtctaaattaat-tttttgtgcatctaataaaaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
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ctcccaagcttcttataagatttccttatttaggatttacccatgtttaatttctgtagaattatatttgtacataaatttttctttgacaaaatttcacTTACTGGGATGACTGGTTGAGACTTAAAGAGAATCACAAAGGACGACAGTTTATCCGGCCCGAAGTATGCAGAACATATAATTTTGGTGAGCAT
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA04G00200.1 (Glycine max), 3'ss of exon 13
--------------------gtctaaattaattttttgtgc--atctaataa-aaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
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gaccagggttcttataagatttccatatttaagattcgcccttgtttaatttcagtaaaattgtattttgtacgtaaatttttctttgacaaaatttcacTTACTGGGATGACTGGTTGAGACTTAAAGAGAATCATAAAGGACGACAGTTTATCCGGCCCGAAGTATGCAGAACATATAATTTTGGTGAGCAT
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT4G38240.1 (Arabidopsis thaliana), 3'ss of exon 13
--------------------------------------gtctaaattaattttttgtgcat-ctaataaaaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
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atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttcta-agacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 13
--------------------------------------------------gtctaaattaattttttgtgcat-ctaataaaaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
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gtggccaaaggcatatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttcta-agacttttcttaacaaatatccacttactgggatgattggctgagACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
cacttac putative branch site (score: 2)
tacaaattttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctaaattaattttttgtgcatctaataaaaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT