Sequence
atgc intronic sequence ATGC exonic sequence...acctgaatctacaaaatttaaatttattggaattgaaattcttattcaactcatcacaatcagataaggccttactatgtttcactccttccgcatgcagGTATTTTAATTCGCTGCAGAGTGAATGCTTCTCTGCCTGTTTTCTCTCCGATGTAAACATGGTTATTTCAGCACCAACTGGAAGTGGTAAAACAGTGCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g40450.1 (Oryza sativa), 3'ss of exon 2
acctgaatctacaaaatttaaatttattggaattgaaattct--tattcaactcatcacaatcag-ataaggccttactatgtttcactccttccgcatgcagGTATTTTAATTCGCTGCAGAGTGAATGCTTCTCTGCCTGTTTTCTCTCCGATGTAAACATGGTTATTTCAGCACCAACTGGAAGTGGTAAAACAGTGCTC
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gcatcaggctaacaaaac--acttctgtggaatgtggattacggtatgaaacgtggagtagctgggatggggttttacagtggcatcctgcgttc-cgtgcagGTATTTCAATTCGTTGCAGAGCGAGTGCTTCCCTGCATGCTTCCTCTCGGATGTAAACATGGTTATCTCTGCGCCTACTGGGAGTGGCAAAACCGTGCTG
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G07850.1 (Glycine max), 3'ss of exon 1
acctgaatctacaaaatttaaatttattggaattgaaattcttattcaactca-tcacaatcagataaggccttactatgtttcactc-cttccg--catgcagGTATTTTAATTCGCTGCAGAGTGAATGCTTCTCTGCCTGTTTTCTCTCCGATGTAAACATGGTTATTTCAGCACCAACTGGAAGTGGTAAAACAGTGCTC
| | | || | | | | || || |||| | || | || | | | ||| | | ||| | | ||| ||| || || ||| ||||||||||| || |||||||||||||| || |||||| | ||| |||||||||||||| || || ||||||||||| ||||||||||| || |||
----gcctttcaaacctctgattgaatcggttcagaaaatattctgcatttgaattggtctcacaagggttcttgatttacatcatgagctttcgattatacagATATTTTAATTCACTTCAGAGTGAATGCTTTCCTATCTGTTTCCACTCTGATGTAAACATGGTCATCTCTGCACCAACTGGGAGTGGTAAAACTGTACTC
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G27730.1 (Arabidopsis thaliana), 3'ss of exon 1
acctgaatctacaaaatttaaatttattggaattgaaattcttattcaactcatcacaa--tcagataaggccttactatgtttc-actccttccgcatgcagGTATTTTAATTCGCTGCAGAGTGAATGCTTCTCTGCCTGTTTTCTCTCCGATGTAAACATGGTTATTTCAGCACCAACTGGAAGTGGTAAAACAGTGCTC
|||| | | | | ||| || ||| | | || |||| | | | | || || || ||| | | | || || ||||| ||||||||||| || ||||| | || |||| ||||||| | |||||| ||||||| || ||||| |||||||||||||| || ||
tatggaatatgatga---tgattttcttttctttggtcctttgatataactgtttgtgaatctaaactttgctttgtgttgcttctggatcgtttttgtttagATACTTTAACTCGCTGCAGAGCGAGTGCTTTCCGCTTTGCTTTCACTCCGATATCAACATGATTATTTCTGCGCCAACGGGAAGTGGTAAAACTGTACTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaactcatcacaatcagataaggccttactatgtttcactccttccgcatgcagGTATTTTAATTCGCTGCAGAGTGAATGCTTCTCTGCCTGTTTTCTCTCCGATGTAAACATGGTTATTTCAGCACCAACTGGAAGTGGTAAAACAGTGCTC
gccttac putative branch site (score: 3)
tgtttcactccttcc putative PPT
ttactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acctgaatctacaaaatttaaatttattggaattgaaattcttattcaactcatcacaatcagataaggccttactatgtttcactccttccgcatgcagGTATTTTAATTCGCTGCAGAGTGAATGCTTCTCTGCCTGTTTTCTCTCCGATGTAAACATGGTTATTTCAGCACCAACTGGAAGTGGTAAAACAGTGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
acctgaa
- - - - - acaaaat
- - - - - - - - - - - - - - - aattgaa
- - - - - - - - - - - - - - - - - - - - - - - caactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - cacaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaggcc