Sequence
atgc intronic sequence ATGC exonic sequence...catgacattgaatatgcatgtatgtagtgaccgattgaacaaattggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------catgacattg-aatatgcatgtatgtagtgaccgattgaacaaattggt--ttgattttgtatgattagttgcgctaacacttagttcattcat--aatattt----agGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
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gtagtacttaaacccacttcatctatcatctctaggttgtacaacatgaggaattagcattgcttgcatgtacaacacagtagtttttccccttgtgacagagaactagacattcttctaacagactatagataat-atcagtgataattctgaatactttcctttactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
-------------------------------------------------------------------------------------------catgacattgaatatgcatgtatgtagtgacc----gattgaacaaattggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
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gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgaccc--agtctaa--actgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------------------------------catgacattgaatatgcatgtatgtagtgac----cgattgaacaaattggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
| || | || || | | || | | | | | | || || |||| | ||| ||| | || || | ||| | | || |||| | | || || |||||| | || || || || ||| | ||||||||||| |||||||||||||| ||||| || |||||||||||
gtagctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgaccc--agtctaa--actgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G164185_T01 (Zea mays), 3'ss of exon 5
-----------------------------------------------------------------------------------------------catgacattgaatatgcatgtatgtagtgaccgattgaacaaattggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
|| ||| | || | || | || | | || ||| ||| | ||| ||| | | || | ||| || | || |||| | || || || ||||| | | || || || ||| | ||||||||||| |||||||| ||||| ||||| || |||||||||||
gttgtacttaactcagtttcatttatgcaccttgcaaaaccatattgtagttatttagaactattgagctgattcctggatattgtgtagctgaaaattgtattttagttgattctaaaatatttcctgtctatgtaaccattttttcttttcacaatttgttacattgac--tcagt--ataaactgtaaacagGTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAG
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 5
--------------------------------------------------------------------------------------------------catgacattgaatatgcatgtatgtagtgaccgattgaacaaattggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
|| ||| | || | || | || | | || ||| ||| | ||| ||| | | || | ||| || | || |||| | || || || ||||| | | || || || ||| | ||||||||||| |||||||| ||||| ||||| || |||||||||||
gtagttgtacttaactcagtttcatttatgcaccttgcaaaaccatattgtagttatttagaactattgagctgattcctggatattgtgtagctgaaaattgtattttagttgattctaaaatatttcctgtctatgtaaccattttttcttttcacaatttgttacattgac--tcagt--ataaactgtaaacagGTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
cgctaac putative branch site (score: 2)
ttagttcattcataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgacattgaatatgcatgtatgtagtgaccgattgaacaaattggtttgattttgtatgattagttgcgctaacacttagttcattcataatatttagGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG
catgaca
- - - - - - - -gcatgta
- - - - - - - - - - - - - - - - - - gaacaaa
- - - - - - - - - - - - - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaacac