Sequence
atgc intronic sequence ATGC exonic sequence...tatggatgttttatctttattgtccttttcttagttgggatgatgttataacatttactgcttattttagtagttttaatatttcagagatatttcccagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G40430.1 (Glycine max), 3'ss of exon 2
-tatggatgttttatc-tttattgtccttttcttagttgggatgatgttataacatttactgcttattttagtagttttaatatttcagagatatttcc-cagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG
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cctcaaacatttcacaacctctagtctcttcaataattgggataatatttttttcttt-ttacccttattactaatattaac--tgcatttctcttttggcagGTAAAGCGATGTGGAGAAATGTCAAGAAAGCTACGATTCTTCAAGGATCAAATCAGTAAAGCTGGTCTAATGTCTTCTTCTCGTACTGAATTGCAACCCG
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G15730.1 (Glycine max), 3'ss of exon 2
-tatggatgttttatc-tttattgtccttt-tcttagttgggatgatgttataacatttactgcttattttagtagttttaatatttcagagatatttcccagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG---
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cactggatatattgttatctatcttcagaagtcctaattgtgataatatcctctctctatattttcaatttaccaacatgaac---tgcattttgcttgacagGTAAAACGATGTGCAGAAATGTCAAGAAAGCTACGATTCTTCAAGGATCAAATCAATAAAGCTGGTCTAATGTCTTCTCCTT---CGGTCTTGCAATCAGATA
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G04970.1 (Glycine max), 3'ss of exon 2
---tatggatgttttatctttattgtccttttcttagttgggatgatgttataacatttactgcttatt-ttagtagttttaatatttcagagatatttcccagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG
||| || || |||| ||| || | ||||||| ||||| | ||| | |||||| ||||| | ||||| ||| |||||||| ||||||| ||| ||| |||||||||| ||||| ||||| |||||| ||||||||||||| |||| |||||| ||||| ||| |||||||||
gtttatatttggattggatttactgttacaatcatgattgggataatgtttttctttttcccccttattgctagtattaactgcatttct----cttttggcagGTAAAGCGATGTGCAGAAATGTCAAGAAAGCTTCGATTCTTCAAGGATCAAATCAGTAAAGCTGGCCTAATGTCTTCTTCTCGTACTGTATTGCAACCAG
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 2
---tatggatgttttatctttattgtccttt--tcttagttgggatgatgttataacatttactgcttattttagtagttttaatatttcagagatatttcccagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG---
||||| | || | | | ||| || | ||| ||| || | | || || | |||||| | | | || | | || |||||||| ||||||| ||| ||| |||||||||||||||| ||| | |||||| ||| |||||||||| |||| |||||| || | | ||||| |||
tgcactggatatattgttatgtatctccagaagtcctgattgtgataatatcctg-tatatattttttattt-accaacatgaac---tgcattttgcttgacagGTAAAGCGATGTGCAGAAATGTCAAGAAAGCTACGATTCTTCGAGGATCAAATCAATAAAGCTGGTCTAATGTCTTCTCCTT---CAGTCTTGCAAACAGATA
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S60_200V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------------tatggatgttttatctttattgtccttt------tcttagttgggatg-atgttataacatttactgcttattttag--tagttttaatatttca-gagatat-ttcccagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG
|| | || || || | ||| | | | ||||| || || | || || | | | || | ||||||| | ||| || | | || |||| || ||||||||||||||||||||||||||||||| ||| | || ||| | |||||||||| || || | | || | | |
gtgaggattctcgacacctctgaaaatgtttgttaggaattcgttgatttccctttccctcgtacactttcctttgggctgcatttccccacccttgataccttttgcatgttagttttttaacctcaagatgtgtgttattagGTGAAGCGATGTGGAGAGATGGCAAGAAAGCTACGATATTTTCACGACCAAATTGCTAAAGCTGGTCAAACACCTGCACAGAGACCCATGGTAGACAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttataacatttactgcttattttagtagttttaatatttcagagatatttcccagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG
tatttccc CT-rich tract
ttattttagtagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatggatgttttatctttattgtccttttcttagttgggatgatgttataacatttactgcttattttagtagttttaatatttcagagatatttcccagGTAAAACGATGTGGAGAGATGGCAAGAAAGCTACGATTTTTCAAAGATCAAGTCAGTAAAGCTGGTTTAATCTCTTCTGCTCGTCCTGATCTGCAACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- tggatgt
- - - - - - - - - - - - - - - -tagttgg
- - - - - - - - - - - - - - - - - - - - - - - - - -catttac