Sequence
atgc intronic sequence ATGC exonic sequence...ataactaatattgatggccaaccatagttttggatttttcccttatttttgtttctattttcagaaaaattcagataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G31200.1 (Glycine max), 3'ss of exon 4
ataactaatattgatggccaaccatagttttggatttttcccttat-ttttgtttctattttcagaaaaattcag-ataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
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-aaattcgt-ttaccaagcggcttgccctttgcgtttgttattcgcatattgtgattttactctgaagttttttttacaaggccattttgatacttaaacagGCAAGTTTCAATAGAGGAAGGAGATGCAAAGTCCCGTGAGTTCGGAATCATGTTCATAGAAACCAGTGCAAAAGCAGGCTTCAATATCAAG
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G14390.1 (Glycine max), 3'ss of exon 4
--ataactaatattgatggccaaccatagttttggatttttcccttatttttgtttctattttcagaaaaattcagataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
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aaatcgtttac-caggcggcctaccctttgtgtttgtcattggcgtattgtgattt-tactctgaagttttttttacaagagccattttgatacttgaacagGCAAGTTTCTATAGAGGAAGGAGATGCAAAGTCCCGTGAGTTTGGAATCATGTTCATAGAAACCAGTGCCAAAGCAGGCTTCAATATCAAG
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G38110.1 (Glycine max), 3'ss of exon 4
---ataactaatattgatggccaaccatagttttggatttttcccttatttttgtttctattttcagaaaaattcagataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
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tttccagttagt-ttgcacatcatatttgtattttaactattggggtgttactatttaaagttccgttacaacttc--taatgtcattttgatacttaaacagACAGGTTTCTATAGAGGAAGGAGATGCCAAGTCCCGTGAGAGTGGAATCATGTTCATAGAAACCAGTGCAAAAGCAGGCTTCAATATTAAG
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G02040.1 (Glycine max), 3'ss of exon 4
ataactaatattgatggccaaccatagttttggatttttccctt------atttttgtttctattttcagaaaaattcagataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
| | | | | | | || | |||| |||| |||| ||| | ||| | ||| | || | | || | |||||| ||||| || | |||||| || || || ||||||||||| ||| |||| || ||||| |||| |||||||||||||||||||||| |||||||| |||||||| |||
-tttccagt-tagtttgcacatcata--tttgtatttctcctattgtggtattactatttaaagttccggtgcaacttc--taatgtcattttgatacttaaacagACAGGTTTCTATAGAGGAAGGAGATGCCAAGTCCCGTGAGAGTGGAATCATGTTCATAGAAACCAGTGCAAAAGCAGGCTTCAATATTAAG
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G10260.1 (Arabidopsis thaliana), 3'ss of exon 4
ataactaatattgatggccaaccatagttttggatttttcccttatttttgtttctattttcagaaaaattcagataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
||| || | | || | | || |||| || ||||| | || | || || ||| || ||||||||||||| || ||||||||||||| |||| ||||||||| |||||| || ||||| || |||||||| ||||||||||| || ||||||
gtaagaaacact--tgacgagaatgagacatggaagctttttctatttagctatccaactt---------------gatatttcc------atttgacagGCAAGTGTCGATTGAGGAAGGTGATAACAAAGCTCGTGATTATGGAGTAATATTCATTGAGACCAGTGCAAAAGCAGGATTTAACATCAAG
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G22290.1 (Arabidopsis thaliana), 3'ss of exon 3
ataactaatattgatggccaaccatagttttggatttttcccttatttttgtttctattttcagaaaaattcagataatgtttttttggtaa--tcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG---------
|| | |||| |||||| || || | || | |||| | ||| | | || | | ||||| | || | | ||||||||| || || |||||||| |||| |||| |||||| | ||||| |||||||| || || || || ||||||||||||||||| |||
gtatttgatatcataagccaacattacaatttctctgttttttcatttgatgagattgttttgaagatgttatttttttctttttcttgtgaattttttcagGCAAGTTTCTATTGAGGAAGGAGATAGCAAAGGTCGTGAATACGGAGTTATGTTCATTGAGACGAGCGCGAAAGCAGGATTCAATATTAAGCCTTTGTTT
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S353_41V6.1 (Physcomitrella patens), 3'ss of exon 5
ataactaatattgatggccaaccatagttttggatttttcccttatttttgtttctattttcagaaaaattcagat-aatgtt--tttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
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--gtgcatttgaaactttcaagtccagtct-ggtttggctgctaaaaggagaatttatcgcaatgtgagttcttatgaataataattgctggaaaatgtacagGCAAGTCTCAATAGAGGAAGGGGATGCCAAGGCAAAGGAATTTGGAGTCATGTTCATCGAAACTAGTTCTAAAGCTGGATTTAACATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgtttctattttcagaaaaattcagataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
aaaaattcagataatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataactaatattgatggccaaccatagttttggatttttcccttatttttgtttctattttcagaaaaattcagataatgtttttttggtaatcaaacagGCAAGTGTCAATAGAGGAAGGTGATACCAAATCTCGTGATTTTGGAGTCATGTTCATAGAAACCAGTGCTAAAGCAGGATTCAATATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- aactaat
- - - - - ttgatgg
- - - - - - - - -ccaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaaa