Sequence
atgc intronic sequence ATGC exonic sequence...atagaataatgatgcttctttataatccatgtgaaccatatatctttttattagtttcatttgagtttttatggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 6
----atagaataatgatgcttctttataatccatgtgaaccatatatctttttattagtttcatttgagtttttatggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
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gcagatttcatcatattgccttatatctttccatgtg---cttacattgattacattgct-catctgtgttcctttattttgcattggaatatgatgatattagGGCATAAAAGAAGGCTGGTATGATGGAGCGAGCATTGCCTTTGCTGTTCTTCTAGTTGTATTTGTTACAG
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G391042_T02 (Zea mays), 3'ss of exon 6
atagaata-atgatgcttctttataatccatgtgaaccatatatctttttattagt-ttcatttgagtttttatggcttc-cattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
||| | || || | | || | || | || | || | || ||| || |||| || | | | | || |||| | | || | |||||| || |||||||| ||||||||||| | ||||||||||||||| ||| |||| ||| || |||||||||
gcagatttcatcatattcccttgca-tctgtatgtgct-tac-tgcttccattggtgctcatctgtgctcctttatttttacattggaatatgatgacattagGGCATAAAAGAAGGCTGGTATGATGGAGCGAGCATTGCCTTTGCTGTTCTTCTAGTTGTATTTGTTACAG
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 5
atagaataatgatgct-tctttataatccatg-tgaaccatatatcttt-ttattagtttcatttgagtttttat--ggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
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-ttatgtttggtcgttctcttgataatctaggattaatcgtatatttttgtgattgttgagatttttattttcattcagtttgacgataattttgt----tgcagGGTATCAAGGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTGTTGTTACAG
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 5
-atagaataatgatgcttctttataatccatg-tgaaccatatatcttt-ttattagtttcatttgagtttttatggcttccattttattttgtcttcttt--agGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
| | || | || ||| |||||| | | | || ||||| ||| | | || | |||| |||| || || ||| | | || || ||||||| || |||||||||||||||||||| |||||||| |||||||||||||||||||| ||||||||||
tgatgtttgatcgttct-cttgataatctaggattaagagtatatttttgtgaatattgagatttttattttcat----tctgtttgacaataattttgttgcagGGTATCAAGGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTGTTGTTACAG
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 8
---atagaataatgatgcttctttataatccatgtgaaccatatatctttttattagtttca---tttgagtttttatggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
|| | | ||| |||||| | | | | || ||||| ||| | || |||| | | | | || ||| ||| || |||||||||| |||||||||||||| ||||| |||||||| |||||||||||||||||||| |||||||||
tgtatttctcagtt-catcccttcataatctgggattagga-acatgtttttgttaaacctaggaattaggtttatcaagttcagaattaattctgt----ttcagGGTATTAAGGAAGGATGGTATGACGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTCTTGTTACAG
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G00420.1 (Glycine max), 3'ss of exon 5
-atagaata-atgatgcttctttataatccatg-tgaaccatatatcttt-ttattagtttcatttgagtttttatggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
| || | | | ||| |||||| | | | ||| | ||| || | | | || |||| | | | | || ||| ||| || ||||| |||| |||||||||||||||||||| |||||||| |||||||||||||||||||| |||||||||
tgcatgctagacagttttccttcataatctgggattaggaataagtttttgttgatgctaggaattaggtttatcaagttcagacttaattatgt----ttcagGGTCTTAAGGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTCTTGTTACAG
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G57110.2 (Arabidopsis thaliana), 3'ss of exon 7
--------------------atagaataatgatgcttctttataatccatgtgaaccatatatc----tttttattagtttcatttgagtttttatggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
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gtttgtgatgaaatcaattaactaaatttggctcttccctctttccccagagtaatgtcacctccaaattaaccttggtcttacacaatctttactaacttggataaca----atcatcgacagGGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttattagtttcatttgagtttttatggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
cttccattttattttg CT-rich tract
attttattttgtctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atagaataatgatgcttctttataatccatgtgaaccatatatctttttattagtttcatttgagtttttatggcttccattttattttgtcttctttagGGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- agaataa
- - - - -tgatgct
- - - - - - - - - - - - - ccatgtg
- - - - - - - - - - - - - - - - -aaccata