Sequence
atgc intronic sequence ATGC exonic sequence...gttgtttccagtgtaacagtttagagttgtgatcttctgtgttaaacatcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g15820.1 (Oryza sativa), 3'ss of exon 4
gttgtttccagtgtaaca-gtttagagttgtg--atcttctgtgttaaacatcacagaatgagagatcttcaatgctaatattgttgaat-----tttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA---
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-------ctgatgaactttgtttggacttctggaagggcctagcatgcatattattcacttagtcatgta-aatcaaaatgtctctgacaaaccgcttttatatgcagGGGTTACAACCATTGCTGGGGGGAAATCAATG---AGAGGTGGGCACCTAGATGGGCCAAGTGATGATGCAAAATTTTCTACTGATTTTGAAATTCGCTACAT
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G125455_T03 (Zea mays), 3'ss of exon 4
----gttgtttccagtgtaacagtttagagttgtgatcttctgtgttaaacatcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA---
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ttcagatgtttc---ttcaatcattatgcatacttcttccttatctaatctcttgtaaaggataggttcctttctgtctgacatattgagttctg-attgttagGGGTTACAACTATTGCTGGGGGAAAATCAGGC---AGAGGAGGGCATGTTGACGGGCCAAGTGACGAGGCAAAATTTTCTACTGATTTTGAAGTTCGTTACAT
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G03880.1 (Glycine max), 3'ss of exon 4
-----------------------------gttgtttccagtgtaacagtttagagttgtgatcttctgtgttaaacatcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
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gcaagcattatgttatactctgagcaatcctttgtcctcttctaccccataagactccttttctctcacattaga-atcagagg-tgggagcttttttat--tga----gttaaggtttctgttttcagGGGTGACAACAATTGCTGGAGGAAAATGGAGCCGGGGAGGGGGTCATGTTGATGGTCCAAGTGAAGAAGCTAAATTTTCTAATGATTTTGATGTTGTTTA
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G03810.1 (Glycine max), 3'ss of exon 4
---------------------------------gttgtttccagtgtaacagtttagagttgtgatcttctgtgttaaacatcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
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gcaagcattatgttatactctgagcaatcctttgtcctcctcagtcctctcccccataagacttcttttctacttctcacatta--gaatcgtaaattggagccttttatttagttaaggtttctgttttcagGGGTCACAACAATTGCTGGCGGAAAATGGAGCCGGGGAGGGGGCCATATTGATGGTCCAAGTGAAGAAGCTAAATTTTCTAATGATTTTGATGTGGTTTA
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 3
gttgtttccagtgtaacagtttagagttg-tgatcttctgtgttaaa--catcacagaatgagag----atcttcaatgctaatattgt--tgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
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------tgcaatg--atactataggataggtaatctttgattataaaactgttaccacattagagtcgaatttgggaactttttattgaagtaagatttctattt-cagGGGTCACCACAATTGCTGGAGGAAAATGGAACCGTGGAGGGGGGCATGTTGATGGACCAAGTGAAGAAGCTAAATTTTCTGATGACCTTGATGTGGTTTA
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G39910.1 (Glycine max), 3'ss of exon 5
--gt-tgtttccagtgtaacagtttagagttgtgatcttctgtgttaaacatcacagaatgag--agatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
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acgtgtactcttacaatgatattgtaggcccg-gtttgattatat-aattgttaccgcatgagtcaaatgtgggagcttttcattgaaga--tttctattt-cagGGGTCACGACAATTGCTGGTGGAAAATGGAGCCGCGGAGGGGGCCATGTTGATGGACCAAGTGAAGAAGCTAAATTTTCTGGTGACTTTGATGTGGCTTA
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G23880.1 (Arabidopsis thaliana), 3'ss of exon 4
gttgtttccagtgtaacagtttagagttgtgatcttctgtgttaaacatcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
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gtgattttttctgcggt--tttatggttttg-ccttttg-gacaaatgtt------tggtaagtatcggatttaagaaagaataaaaatgcaatg-gcagGAGTCACAACCATTGCTGGGGGGAAAATGGTTCGTGGGGGAGGTCATGTGGATGGTCCAAGTGAAGATGCAAAGTTTTCAAATGATTTTGATGTTGTTTA
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G70280.1 (Arabidopsis thaliana), 3'ss of exon 3
gttgtttccagtgtaacagtttagagttgtgatcttctgtgttaaaca-tcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
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------------gtaatagcttgt--tcataactgcattcatagaagggttatatatacgtttgcatcttgtactgagttttaaatgcctatgatgtgaagGAGTTACAACTATTGCCGGGGGCAAAACGGTTCGAAATGGAGGGCATGTGGATGGACCAAGTGAAGATGCAAAGTTTTCAAATGATTTTGATGTTGTTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
tgctaat putative branch site (score: 2)
ttttctacct putative PPT
taatattgttgaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttccagtgtaacagtttagagttgtgatcttctgtgttaaacatcacagaatgagagatcttcaatgctaatattgttgaattttctacctgcagGGGTTACAACAATTGCAGGGGGGAAGCTGGGCCGTGGAGGGGGGCATGTAGATGGGCCAAGTGAAGATGCAAAGTTTTCTAATGATTTTGATGTGGTGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- tgtttcc
- - - - - - - - - - - - - - - - -cttctgt
- - - - - - - - - - - - - - - - - - - - - - - catcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaga
