Sequence
atgc intronic sequence ATGC exonic sequence...gagcaatgtgcaattttggttgatttggcatttattgtgaggtgattaatcaaagaatagcatttattgactaagtgtcttgattgttaatgctaagtagGCTCATATTAGGGAACTTGAAGAAGAAGTGAAGCTTCTTAAGAATCTCTCTCATCCAAACATTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g21510.1 (Oryza sativa), 3'ss of exon 2
--gagcaat----gtgcaattttggttgatttggcatttattgtgaggtgattaatcaaagaatagcatt--tattgactaagtgtcttgattgttaatgctaagtagGCTCATATTAGGGAACTTGAAGAAGAAGTGAAGCTTCTTAAGAATCTCTCTCATCCAAACATTGTT
||||| | ||| || |||| | | | || | | |||| | | || ||| || || ||| |||| | | | |||| || || || || || || |||||||||||||| |||||||| || || ||||| |||||||||
gtgagcagctttcatccaaccccctttcgtttgtc-tagagaaagaagaggaaaatcgagggctaatattgacatggagtaatccgtggtattggtctt-ttggtcagGCGCACATAAGAGAGCTCGAGGAAGAAGTGAAGCTACTTAAGAACCTGTCACATCCCAACATTGTT
upper sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC197029.3_FGT003 (Zea mays), 3'ss of exon 2
gagcaatgtgcaattttggttgatttggcatt-tattgtgaggtgattaatcaaagaatagcatttattgactaag-tgtcttgat-tgttaatgctaagtagGCTCATATTAGGGAACTTGAAGAAGAAGTGAAGCTTCTTAAGAATCTCTCTCATCCAAACATTGTT
|| | | || || || ||| | || | || |||| | || ||| | | || | ||| || | ||||||||||||| || || ||||||||||||||||| || ||||| || ||||| || |||||||||
-----gtgagtagcattttttaataaaaaattgtgttctcggggaattagagccttga-ggcttttgtgagtttgtctgacacgatgtgccttctgtggctagGCTCATATTAAAGAGCTCGAAGAAGAAGTGAAGCTACTCAAGAACCTGTCTCACCCCAACATTGTT
upper sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G09000.1 (Arabidopsis thaliana), 3'ss of exon 2
gagcaatgtgcaattttggttgatttggcatttattgtgaggtgattaatcaaagaatagcatttattgactaagtgtcttgattgttaatgctaagtagGCTCATATTAGGGAACTTGAAGAAGAAGTGAAGCTTCTTAAGAATCTCTCTCATCCAAACATTGTT
|| |||| || || | || | | | || | | || ||||| | || || |||| ||||||||||||||||||| ||| |||||||||||||| ||||||||||| |||||||| ||||| || || |||
-gttcataaacaatcc-atttcatcgagttttccctctttcaatttccattgatttttgtacttcattgagtttgttatctg--tgttggtgctaagtagGCTCATATTCAGGAGCTTGAAGAAGAAGTTAAGCTTCTTAAAAATCTCTCCCATCCTAATATAGTT
upper sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G54960.1 (Arabidopsis thaliana), 3'ss of exon 2
gagcaatgtgcaattttggttgatttggc-atttattgtgaggtgattaatcaaagaatagcatttattgactaagtgtcttgattgtt--aatgctaagtagGCTCATATTAGGGAACTTGAAGAAGAAGTGAAGCTTCTTAAGAATCTCTCTCATCCAAACATTGTT
|| | | | | |||| || | |||| || | | ||| | | || || ||| || || || | ||||||||||| ||| |||||||| ||||||||||| || |||||||||||||||||||| || |||
--------------gttcataaacaagcctatttgtttcttgttgat--attgtgctacattttttttacattacatgactttcttattttggtgaacaaaagGCTCATATTCAGGAGCTTGAAGAGGAAGTGAAGCTACTCAAGAATCTCTCTCATCCAAATATAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatcaaagaatagcatttattgactaagtgtcttgattgttaatgctaagtagGCTCATATTAGGGAACTTGAAGAAGAAGTGAAGCTTCTTAAGAATCTCTCTCATCCAAACATTGTT
atttattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagcaatgtgcaattttggttgatttggcatttattgtgaggtgattaatcaaagaatagcatttattgactaagtgtcttgattgttaatgctaagtagGCTCATATTAGGGAACTTGAAGAAGAAGTGAAGCTTCTTAAGAATCTCTCTCATCCAAACATTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- -caatgtg
- - - - - - - - tggttga
- - - - - - - - - - - - - ggcattt
- - - - - - - - - - - - - - - - - - - - - - - -aatcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcttg