Sequence
atgc intronic sequence ATGC exonic sequence...atgtttatactgaataggagtgattaggatttgttgaatcctcatcataccgatatgatatccctgcactaatatcttggtcttctgcactatataacagAAAATGATCAATGGAATGACTGTTAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 11
atgtttatactgaataggagtgattaggatttgttgaatcctcatcataccgatatgatatccctgcactaatatcttggtcttctgcactatataacagAAAATGATCAATGGAATGACTGTTAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTC
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------gtgatgcatattggc-attacatttatctg--ttcccaaaattttgtggtggc-tcacagtattgatactgtc-tcctatatcttgaatgacagAAAATGATTAATGGAATGACTGTTAGCCGGTGGGCATGCATAAATTTTTCACGGAGCGTGCAAGATAGTGTTGCTCGTACTTTTTGTAATGAGCTTGCTC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 11
atgtttatactgaataggagtgattaggatt-tgttgaatcctcatcataccgatatgatatccctgcactaatatcttggtcttctgcactatataacagAAAATGATCAATGGAATGACTGTTAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTC
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-------------gtgatacatattggcattacatttatctgttaccaaaattttgtgatggctcagtattgatactgtctcctaaaatcttgaatgacagAAAATGATTAATGGAATGACTGTTAGCCGGTGGGCATGCATAAATTTTTCAAGGAGCGTGCAAGATAGTGTTGCTCGCACTTTTTGTAATGAACTTGCTC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 10
atgtttatactgaataggagtgattaggatttgttgaatcctcatcataccgatatgatatccctgcactaatatcttggtcttctg-cact---atataacagAAAATGATCAATGGAATGACTGTTAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTC
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----aattcctaggtatgtgctattcctgtttagcttggagttttcatgcgacagtaagtttttaatactagtcactttgtcggctaatacttgaatgatacagAAAATGATAAATGGGATGACTGTCAGCCAGTGGGCATGCATAAATTTTTCACGAAGTGTACAAGACAGTGTTGCTCGCACTTTTTGTACCGAGCTAGCTC
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 2
atgtttatactgaataggagtgattaggatttgttgaatcctcatcataccgatatgatatccctgcactaatatcttggtcttctg-cact---atataacagAAAATGATCAATGGAATGACTGTTAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTC
||| | || || | | ||| ||| || | |||| | ||| | ||| | ||| | ||| ||| || ||| || |||||||||||| ||||| |||||||| |||| ||||||||| || || || || || || || ||||| ||||||||||| |||||||||||||| | |
atgaaattcctaggtatgtgctattcctgtttagtgcggagttttcatgc-aata-gttattaat--actggtcactttgtcggctaatacttgaatgatacagAAAATGATAAATGGGATGACTGTCAGCCAGTGGGCATGCATAAATTTTTCACGAAGCGTACAAGACAGTGTTGCTCGCACTTTTTGTAATGAATTAGTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataccgatatgatatccctgcactaatatcttggtcttctgcactatataacagAAAATGATCAATGGAATGACTGTTAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTC
cactaat putative branch site (score: 2)
atatgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtttatactgaataggagtgattaggatttgttgaatcctcatcataccgatatgatatccctgcactaatatcttggtcttctgcactatataacagAAAATGATCAATGGAATGACTGTTAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - aatagga
- - - - - - - - - - - - - - - - - - - -cctcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctgca