Sequence
atgc intronic sequence ATGC exonic sequence...aatttttgtacctttttcctttcaatgtaagtttgaaatttagcagctctgaggtgttattattcgatttgcgattcttaaatggatgtttgcttgccagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G454952_T01 (Zea mays), 3'ss of exon 1
--aatttttgtaccttttt---cctttcaatgtaagtttgaaa--tttagcagctctgaggtgttattattcgatttgcgattcttaaatggatgtttgcttgccagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
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gccagttctgttccgttttaaatatctttatgttcgttcaaatgccatattgactgcaaaaaggaaatgctgaaacgagaactact-------tccttgtgtgccagCTCCCAAAGGGTTATTCCCACCCGAGCCAGAGCACTACAGGGGCCCGAAGCTCAAGGTGGCCATCATAGGGGCAGGCCTTGCGGGCATGTCCACCGCTGT
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G30220.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------------------aatttttgtacctttttcctttcaatgtaagtttgaaatttagcagctctgaggtgttattattcgat--ttgcgattcttaaa-tggatgtttg-cttgccagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
||||| | || || |||| | | | || | | || || | || || || | ||||| | | || | ||||| | || |||| ||||||||||||||||| || ||||||||||| ||| | |||||||| || || ||||| || ||||||||||| |||||||||||||||||||||||
gtttgtaatttcagttcctgatcaattttcgatcttacacttatcttaccagtgtattcttttcttttttttaatctattgattttcgttctgggagtgttgtgtgtttgcgatgtgtcacaatgtttagacaataataattctcatactgtaagtttgacatggcagCGCCAAAAGGGTTGTTTCCTCCGGAACCTGAACATTATCGAGGACCAAAACTGAAAGTGGCAATTATTGGAGCTGGACTTGCAGGCATGTCAACTGCAGT
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G37170.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------------------------------------aatttttgtacctttttcc---tttcaatgtaagtttgaaatt-------tagcagctctgaggtgt----tattattcgatttgcgattcttaaa-tggatgtttg-cttgccagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
| ||||| | | ||||| | | ||| || |||||| ||| | || || || | || | ||||||||| || | ||||| | || |||| ||||||||||||||||| || ||||| ||||| ||| | ||||| ||||| || ||||| || ||||||||||| |||||||||||||||||||||||
gtttgtaatttcaatttctcatcaattgtcgatgttacacttatattagcagtatctttttttccccttctctttatctattatttttttttcatttttgggagtgttggaataatttggaaattaaaggcatagttagtttggggagtgtcacaacgtttagataataattcttaaactgtaagtttgacatggcagCGCCAAAAGGGTTGTTTCCTCCGGAACCAGAACATTATCGAGGACCGAAGCTGAAAGTGGCAATTATTGGAGCTGGACTTGCAGGCATGTCAACTGCAGT
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G04870.2 (Arabidopsis thaliana), 3'ss of exon 2
--------aatttttgtacctttttcctttcaatgtaagtttgaaatttagcagctctgaggtgttattattcgatttgcgattcttaaatgga-tgtttgcttgc-cagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
| | | | |||| | ||| ||| | || | | | ||| | || || || | || ||||||| || || |||||||||| ||||| ||||| ||||| |||| || || | |||||| ||||| || || || || || |||||||| |||||||||||||| ||||| ||
ggtttcatgttatgagaagctttcttcttctaataattttctggagcatcgtgattct------tgatcatct--cttactgtt--taaatggtctggttatgaatacagCTCCAAAGGGGTTATTTCCTCCAGAGCCTGTACCATACAAGGGACCTAAGCTGAAAGTAGCCATTATAGGAGCTGGACTTGCAGGCATGTCGACTGCTGT
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S149_171V6.1 (Physcomitrella patens), 3'ss of exon 1
----------------------------------------aatttttgtacctttttcctttcaatgtaagtttgaaatttagcagctctgaggtg--ttat-tattcgatttgcgattcttaaatggatgtttgcttgccagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
||| ||| ||||| | | || | ||| ||| | | || | | || ||| | | | || || || |||| ||| ||| || || ||| | || ||||| || || || || | || || ||||| ||||| || |||||||| ||||||||||| |||||||| || |||||
gtgagtgcaagggcggagtcacgttcaatcgcagtctcatgattgttgagagtttttaatattgattttttttttttttttttttttttttttttgagcaacgtgttgaattcgtgctggtt--ttgaatttttggttgt-agCGCCGAAGGGGCTTTTCCCACCCGAGCCCGAGGCGTACAAAGGTCCGAAGCTGAAGGTTGCGATCATTGGCGCTGGGCTTGCTGGCATGTCTACGGCAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctctgaggtgttattattcgatttgcgattcttaaatggatgtttgcttgccagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
tttgctt CT-rich tract
ttattattcgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttttgtacctttttcctttcaatgtaagtttgaaatttagcagctctgaggtgttattattcgatttgcgattcttaaatggatgtttgcttgccagCTCCAAAAGGGTTGTTTCCACCAGAACCTGAACACTATAGGGGACCAAAGCTCAAGGTGGCTATCATTGGAGCTGGGCTTGCAGGCATGTCAACTGCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - caatgta
- - - - - - - - - - - - - - - - - - - - - -cagctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgga