Sequence
atgc intronic sequence ATGC exonic sequence...ttcatgtcttcccaaaatgtttcaagtgttcatatgatttgattgtagaattttcagtattttataacaaatatgaatatgatgctaagttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0102g01110.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os10g37210.1 (Oryza sativa), 3'ss of exon 10
ttcatgtcttcccaaaatgtttcaagtgttcatatgatttgattg-tagaattttcagtatt--ttataacaaatatgaatatgatgctaa-gttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT
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---tttacctccgtcattcagtcaggtctcc-tgtattttgttttctttagttgttagcaatagttactgatagggtgctgataatgttcatgtaaaatttcagTCAATACCAAATCCAGTTTTCCCTGGAGGTGCAATTATTGGATGCTCTGCAGGGTTCCTTAATGTTCCCAAAATAAAAGGAACTCATACAGCCATGAAGT
upper sequence: Vv05s0102g01110.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G032222_T03 (Zea mays), 3'ss of exon 10
ttcatgtcttcccaaaatgtttcaagtgttcatatgatt-tgattgtagaattttcagtattttataacaaa-tatgaatatgatg---ctaagttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT
||||| | | || | | || || | | | |||| || || | || ||| ||||| |||||| | || ||||||||||| || ||||||||| ||||||| || || ||||| ||||||||||| || || || ||||| || || || ||||| ||||| ||||| || |||||||
-----ctcttctcttctcttctcttttatctatgaaatgatactcaaatcgttttttgtgttcgagaaaaaaatatgataatgatgggctcatgtaaaatttcagTCAATACCATATCCAATTTTCCCTGGAGGTGCAATTATTGGATGCTCTGCAGGATTTCTAAATGTTCCCAAAATAAAAGGAACCCATACAGCTATGAAAT
upper sequence: Vv05s0102g01110.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 10
-ttcatgtcttcccaa-aatgtttcaagtgttcatatgatttgattgtagaattttcagtattttataacaaatatgaatatgatgctaagttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT
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ttgtttgttatcctattagtcatttgattgcctgttatttgctgcagtgcattattttctactc-attacaaatacgaatgtgattcta-gttaaatttcagTCTATCCCATATCCAGTTTTTCCTGGAGGAGCAATTATTGGATGTTCAGCTGGCTTCATGAATGTGCCAAAGATAAAGGGAACTCACACGGCAATGAAAT
upper sequence: Vv05s0102g01110.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G43400.1 (Arabidopsis thaliana), 3'ss of exon 10
ttcatgtcttcccaaaatgtt-tcaagt---gttcatatgatttgattgtagaattttcagtattttataacaaatatgaatatgatgctaagttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT
|| || || | || ||| ||||| | | | || || |||| ||| || |||| |||||||| || ||||||||||| ||||| ||||||||||| || || |||||||| |||||||| |||||||| || || || || || ||||| ||||||||||| |||||||||||||
---attgagaaataagatttgatctagttaaccctttatgacagaaataagatttgtttgacatgttatgacatatttgaacttgatgcta-gtaaaatttcagTCCATTCCCTATCCAGTTTTTCCTGGAGGAGCAATAATTGGATGTTCAGCTGGTTTTCTCAATGTACCCAAGATTAAGGGAACACACACTGCAATGAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaattttcagtattttataacaaatatgaatatgatgctaagttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT
ttataac putative branch site (score: 2)
ttttcagtattttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcatgtcttcccaaaatgtttcaagtgttcatatgatttgattgtagaattttcagtattttataacaaatatgaatatgatgctaagttaaatttcagTCTATTCCATATCCAGTTTTCCCAGGTGGAGCAATCATTGGATGCTCAGCTGGCTTCCTAAACGTCCCAAAGATAAAGGGAACACATACTGCAATGAAAT
- - - tcttccc
- - - - - - -aaaatgt
- - - - - - - - - - - caagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgct