Sequence
atgc intronic sequence ATGC exonic sequence...tttcacagcaacaaaaaggattgttgagttgagtttgtcatcctattcatgatttttggttttttcttttcctgatatttccccatgttttattcaacagTTTAAATTGGCAGCATCAGCTTTGCAAAAATCCGAAAGCTAACCCTGACATAAAGACCCTATTTGTAGATCATACTTGTGGGCAGCCAAATGGTGCAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g05620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G22720.1 (Glycine max), 3'ss of exon 5
tttcacagcaacaaaaaggattgttgagttgagtttgtcatcctattcatgatttttggttttttcttttcctgatatttccccatgttttattcaacagTTTAAATTGGCAGCATCAGCTTTGCAAAAATCCGAAAGCTAACCCTGACATAAAGACCCTATTTGTAGATCATACTTGTGGGCAGCCAAATGGTGCAAGG
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---gttattaaaagatcttatctttgatgtgtaaatataatccattctttgataattg--tgatgttactcacgtttattatttgtgtattgactttcagTTTAAATTGGCAACATCAACTTTGTAAGAACCCAAGGCCCAACCCTGACATAAAGACCCTTTTTGTGGACCATAGTTGTGGGCAACCAAATGGTGCGCGA
upper sequence: Vv11s0016g05620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G12110.2 (Glycine max), 3'ss of exon 5
tttcacagcaacaaaaaggattgttgagttgagtttgtcatcctattcatgatttttggttttttcttttcctgatatttccccatgttttattcaacagTTTAAATTGGCAGCATCAGCTTTGCAAAAATCCGAAAGCTAACCCTGACATAAAGACCCTATTTGTAGATCATACTTGTGG------GCAGCCAAATGGTGCAAGG
| || | | || | || || | | |||| |||| ||| | || | | | | || ||| || ||||||||||||||| ||||| ||||| || || || | | |||||||||||||||||||| ||||| || |||| |||||| ||| |||||||||
---gttattaaaagatcttatcttagatgtgtaaatataatccgtgctgtgataattgtgatgttactcacat--ttattatttgtgtattgactttcagTTTAAATTGGCAACATCAACTTTGTAAGAACCCAAGGCCCAACCCTGACATAAAGACCCTTTTTGTGGACCATAGTTGTGGGCAAGTGCAACCAAATGGT------
upper sequence: Vv11s0016g05620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------------------------------------------------------------------tttcacagcaacaaaaaggattgttgagttgagtttgtcatcctattcat--gatttttggttttttcttttcctgatatttccccatgttttattcaacagTTTAAATTGGCAGCATCAGCTTTGCAAAAATCCGAAAGCTAACCCTGACATAAAGACCCTATTTGTAGATCATACTTGTGGGCAGCCAAATGGTGCAAGG
|| | || | | | ||| ||| | || ||||| || | ||| | || | || | | | | | | || |||| | |||||||||||||||||||||||||| || | | || |||||||| ||||| || || | ||||| || || |||| || ||||| || |
gtaataaatagcccatgtgttctaccttgagctcctcaagattatccaggtggtggcttctgcttgtagttgagcattgttggtggcatgcaacaccgc-actttgtattttccttcgaattcaccagagtattgacatgaaggattttt-atgtgttcgtttatctattt--gcagTCTCAATTGGCAGCATCAGCTTTGCAAAAACCCAAGGCCGAATCCTGACATTAAGACACTCTTCATTGATCACACATGCGGGCCTCCTAATGGGGCTCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatgatttttggttttttcttttcctgatatttccccatgttttattcaacagTTTAAATTGGCAGCATCAGCTTTGCAAAAATCCGAAAGCTAACCCTGACATAAAGACCCTATTTGTAGATCATACTTGTGGGCAGCCAAATGGTGCAAGG
tcctgat putative branch site (score: 3)
tttccccatgtttt CT-rich tract
atttttggtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcacagcaacaaaaaggattgttgagttgagtttgtcatcctattcatgatttttggttttttcttttcctgatatttccccatgttttattcaacagTTTAAATTGGCAGCATCAGCTTTGCAAAAATCCGAAAGCTAACCCTGACATAAAGACCCTATTTGTAGATCATACTTGTGGGCAGCCAAATGGTGCAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - -aacaaaa
- - - - - - - - - - - - - - - - - - -tcatcct
- - - - - - - - - - - - - - - - - - - - - - - -catgatt