Sequence
atgc intronic sequence ATGC exonic sequence...ggattggtccttttaagtctataagttctgcttctaagtattagttgatgagttaacgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 3'ss of exon 2
ggattggtccttttaagtctataagttctgct--tctaagtattagttgatgagt-taacgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
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-tgcgacctctctttagattttgtgtttcattggtttcattattggctattctctgctttcttgtga-tggtttgttgaacc-tttactctttattttgacagAAAACATGACACCTGAGCAAAGGAGGGAGAATTACTTGTGTGATATTACTTATGTTACAAACAGTGAGCTTGGTTTCGATTATCTAAGAGATAACCTTGC
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G01060.3 (Glycine max), 3'ss of exon 3
ggattggtccttttaagtctataagttctgcttctaagtattagttgatgagttaacgttatgactggaatata---taacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
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-gttttttttcttcttgtttttaactgaaattcttcaagatgcaacg-tgttttaaacctattcctttgtttcagtctaacaaat-aatgaatttggttgcagAGAATATGACAAGTCAGCAAAGAAAGGAAAATTACTCATGTGATATAACATATGTCACTAATAGTGAGCTTGGTTTTGATTACTTGAGAGACAATCTTGC
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 4
ggattggtccttttaagtctataagttctgcttctaagtattagttgatgagttaacgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC--------
||||| || ||||||||||||||||||| ||||||||||||||||||
---------------------------------------------------------------------------------------------------------------------------------------------------------gtcactaatagtgagcttggttttgattacttgagagACAATCTTGCCACGGAAA
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 3
--ggattggtccttttaagtctataagt--tctgcttctaagtattagttgatgagttaacgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
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ttttatatttccttacttgtttttaagtgaacttcttcaaggtgcaatgcatt---ttaaacctattcctttgttgcagtctaaca-aatgcatttgttggcagAGAATATGACAAGTCAGCAAAGAAAGGAAAATTACTCATGTGATATAACATAT-----------------------------------------------
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 3
ggattggtccttttaagtctataagttctgcttctaagta-ttagttgatgagttaa-cgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
| || ||||| ||| || |||| || | ||| | || | || |||| || | | || | || ||| || |||||||||||||| ||||||||| | ||||||||| ||||| || |||||||||||||| |||||||||||||| ||||||| ||||||||||||| ||
-gtatgtctcttttc--tctg-aacttctttgtcaatgtaatcagcatcttctttgctcgttgtgtgttatagatgctttacgcatgtggttactttgacagAGAATATGACACCTGAACAAAGAAAGGAAAATTATTTATGCGATATCACATATGTCACCAACAGTGAGCTTGGATTTGATTATCTGAGAGACAATCTAGC
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G01800.2 (Arabidopsis thaliana), 3'ss of exon 3
ggattggtccttttaagtctataagttctgcttctaagta-ttagttgatgagttaa-cgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
| || ||||| ||| || |||| || | ||| | || | || |||| || | | || | || ||| || |||||||||||||| ||||||||| | ||||||||| ||||| || |||||||||
-gtatgtctcttttc--tctg-aacttctttgtcaatgtaatcagcatcttctttgctcgttgtgtgttatagatgctttacgcatgtggttactttgacagAGAATATGACACCTGAACAAAGAAAGGAAAATTATTTATGCGATATCACATAT-----------------------------------------------
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S9_141V6.2 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------------------------ggattggtccttttaagtctataagttctgcttctaagtattagttgat-gagttaacgttatgactggaatatataacaatttgatgtttatactg--gcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
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gtatgagtttcacctttctttttcgcgagtcagattcatcttgatagaggagaaagggaacatctcataacactgttttgtgctttgtgatgtatccttgtgtctatttgtaactggcttaaaaatgactcttcatcgagatatcatgctgac--aaacatgaggcacgtttacgtcacctttgatgcagAGGGGATGACTCCAGAGGAGCGTAGGACTAATTATAATTGTGACATCACCTATGTAACGAACAGTGAGCTTGGTTTTGATTTTCTTCGGGACAACTTGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgagttaacgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
aatatataacaatttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggattggtccttttaagtctataagttctgcttctaagtattagttgatgagttaacgttatgactggaatatataacaatttgatgtttatactggcagAGAATATGACAAGTGAACAAAGGAGGGAAAATTACTTATGTGACATCACATATGTCACAAACAGTGAGCTTGGTTTTGATTTCTTGAGAGACAATCTTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
ggattgg
- - - - - - - - - - - - - -ctgcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataacaa