Sequence
atgc intronic sequence ATGC exonic sequence...aaaaaccttgaaagtgcctgttatcttcattttattcacttttgcatggaaatctgctattccctcaggatgactaattttttcaggtagtggtctgcagGGAAAACTGTAATAACCAGTGATCAAGCACTTAAATTGGAATTTGTTCCCGATTGGATAGCCATTGTTGGCAGTGGCTACATTGGTCTTGAGTTTAGTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 4
--aaaaaccttgaaagtgcctgttatcttca---ttttattcacttttgcatggaa-atctgctattccctcaggatgactaattttttcaggtagtggtctgcagGGAAAACTGTAATAACCAGTGATCAAGCACTTAAATTGGAATTTGTTCCCGATTGGATAGCCATTGTTGGCAGTGGCTACATTGGTCTTGAGTTTAGTGA
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aagattagcacaattgggtttgcagacccaaatgtgttgcctaccatttcttgttatacctattgttcttacagaa------gcctgctgggcaacttttgtgcagGGAAAACTGTTTTTACCAGTGATCATGCACTAAAACTTGAGTCTGTCCCGGACTGGATAGCAATCGTTGGAAGTGGATACATTGGGCTTGAATTCAGTGA
upper sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 4
-aaaaaccttgaaagtgcctgttatcttcattttattcacttttgcatggaaatctgctattccctcaggatgactaattttttcaggtagtggtctgcagGGAAAACTGTAATAACCAGTGATCAAGCACTTAAATTGGAATTTGTTCCCGATTGGATAGCCATTGTTGGCAGTGGCTACATTGGTCTTGAGTTTAGTGA
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tgggtgcattttttat-tgtgacatgtgtattagttgacattttttgtgtactttccttgttgtatgttctcacaaaattctactggatgattatatgcagGGAAAACTGTATTTACTAGTGATCATGCACTGAAACTTGAGTCAGTTCCAGACTGGATAGCTATTGTTGGAAGTGGTTACATTGGACTTGAGTTCAGTGA
upper sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 4
aaaaaccttgaaagtgcctgttatct-tcattttattcacttttgcatggaaatctgctattccctcaggatgactaattttt--tcaggtagtg-gtctgcagGGAAAACTGTAATAACCAGTGATCAAGCACTTAAATTGGAATTTGTTCCCGATTGGATAGCCATTGTTGGCAGTGGCTACATTGGTCTTGAGTTTAGTGA
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------gtaagaagtcatggtcgttggtggattaaaatgcttttaaagtttatgctggtcgattgtaaaaatgattatctcttgatcaaactgcgtgtatccagGAAAGACGGTGTTCACCAGCGATCATGCGCTGAAGCTGGAGTGGATCCCAGACTGGATTGCCATTGTTGGAAGTGGTTACATTGGTCTTGAGTTCAGCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggaaatctgctattccctcaggatgactaattttttcaggtagtggtctgcagGGAAAACTGTAATAACCAGTGATCAAGCACTTAAATTGGAATTTGTTCCCGATTGGATAGCCATTGTTGGCAGTGGCTACATTGGTCTTGAGTTTAGTGA
gactaat putative branch site (score: 2)
atgactaatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaaccttgaaagtgcctgttatcttcattttattcacttttgcatggaaatctgctattccctcaggatgactaattttttcaggtagtggtctgcagGGAAAACTGTAATAACCAGTGATCAAGCACTTAAATTGGAATTTGTTCCCGATTGGATAGCCATTGTTGGCAGTGGCTACATTGGTCTTGAGTTTAGTGA
aaaaacc
- - - - - - - tgcctgt
- - - - - - - - - - - - - - - - tattcac
- - - - - - - - - - - - - - - - - - - - - -gcatgga