Sequence
atgc intronic sequence ATGC exonic sequence...taatactcaacattctaagagatgttaattacaactaatttttttttttaccttttcattgatgcattcttattatctgatttgcttgttgcatattcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G05800.1 (Glycine max), 3'ss of exon 9
taatactcaacattcta-agagatgttaattacaactaattttttttttta---ccttttcattgatgcattcttattatctgatttgcttgtt-gca-tattcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAG
||| || ||| || || || | || | || | | | | | || |||| | | || ||| | ||||| | | |||||||||| ||||| ||| |||||||||| ||| | | |||||||| | ||| ||||||||||||| |||| |||||||| ||| || ||||||| ||||
-----gaatgtattgtagagaaccattgataactcttctttctacacttaaaaagttggttagttgtggattcctttcat-tgaccagtttgtttatacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTTGTGGTTGAATGATGAAGGGATATATGAATTGAGTTTTGATGATGATGCTGAG
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G24450.1 (Glycine max), 3'ss of exon 7
taatactcaacattcta-agagatgttaattacaactaatttttttttttaccttttcat---tgatgcattcttattatctgatttgcttgtt-gca-tattcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAG
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-----gagtgtattgtagagagccattgataactcttctttctacacttaaaaagttggtaagttgtggactcctttcat-tgaccagtttgtttatacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTTGTGGTTGAATGATGAAGGGATATATGAATTGA--------------------
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G36290.1 (Arabidopsis thaliana), 3'ss of exon 8
taatactcaacattctaagagatgttaattacaactaatttttttttttaccttttcattgatgcattcttattatctgatttgcttgttgcatattcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAG
| | ||| | | | || | | | | | || | ||| || || ||||| | |||| | || | | || ||||| |||||||||||| |||||||||||||| |||||||||||||| | ||||| ||||||||||| || | ||| ||| ||| ||||| ||||||| |
----gttgtttcctttaaaaaactctggttccgagtgttatattaacgtggctt---gtttattcattcat-ttatttccattcttcatc---tac-cagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGATGATGTG
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G36280.1 (Arabidopsis thaliana), 3'ss of exon 8
------------------------------------------------------------taatactcaacattctaagagatgttaattacaactaatttttttttttaccttttcattgatgcattctt-----attatctgatttgcttgttgcatat-tcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAG
| | ||| | || | || ||||| | || | | |||| | | || ||| | | |||| | | || || ||||| ||||| ||||| | |||||||||||| |||||||||||||| | ||||| ||||||||||| || | ||| ||| ||| ||||| || || |||
gttgtttcttttgaaagtcagcttatgaatattttattgcattactgttctgccttgacttgtgtcccaatttgcttcagttcccctaaagcagtctgaagatttttattccatgtgattgcagtctgttttgttaatttttttatttccatcttccacccaccagTTCGAGGACGTTGGAACTCATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGACGAGGAG
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G36270.1 (Arabidopsis thaliana), 3'ss of exon 8
------taatactcaa--cattctaagagatgttaattacaactaatttttttttttaccttttcattgatgcattcttattatct--gatttgcttgttgcatattcagTTTGAG-GATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGA-ATTTCGACGATGATGATGAG--------------
| | | || || | || || ||| || | || || || || | | | ||| | | | || ||| | || || ||| | | |||| || | | | || | |||| | || | | | | | ||| ||||| ||| | | | | | || ||
gttgtttctttcgaaagtcagctcatgaacattttattgcatcattgttcttccttgacttgtgtcctaatgtgctgtggctcccttaaattcattctgaagattttgagtccgtgtgatagCGGTCTGTTTTG--TTAACTTTTTTATTTCCATCTTCCACCCACCAGCTCGAGG-ATATTGGAACTCATGGAACAAAAGTAATTATATACAACTTGTGGCTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttaccttttcattgatgcattcttattatctgatttgcttgttgcatattcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAG
atctgat putative branch site (score: 4)
ttattatctgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatactcaacattctaagagatgttaattacaactaatttttttttttaccttttcattgatgcattcttattatctgatttgcttgttgcatattcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAG
- - -ctcaaca
- - - - - - - -taagaga
- - - - - - - - - - - - - - - -caactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcattct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttgt