Sequence
atgc intronic sequence ATGC exonic sequence...ttagagtatgtggaattttagcagtaagctaactctgattgatttttcattttagatgagtttcagtgtgttgtgtatctctgttctatgtatcaaacagGTCAAAATTTGGTGCACAAAGCAGGAAGCTAGCGTTCTTAACATTGACATGAAAGCAAATATTTGTTCGGTCAAGTATAATCCTGGATCTAGCATTTACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G126795_T02 (Zea mays), 3'ss of exon 11
--ttagagtatgtggaattttagcagtaagctaactctgattgatttttcattttagatgagttt-cagtgtgttgtgtatctctgttctatgtatcaaacagGTCAAAATTTGGTGCACAAAGCAGGAAGCTAGCGTTCTTAACATTGACATGAAAGCAAATATTTGTTCGGTCAAGTATAATCCTGGATCTAGCATTTACG
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cgatgcaataggtggaacccactaaaacagtggtttgcagcttcttgttctattataatgcttgtgcaatac-taatggaaggtggtgctgtgtat--ggcagGTGAAAGTGTGGTGCACAAAACAAGAAGCAAGCGTGATCAATATTGATATGAAAGCAAATATTTGTTCGGTTAAATATAATCCTGGGTCAAGCTTCTATG
upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
------ttagagtatgtggaattttagcagtaagctaactctgattgatttttcattttagatgagtttcagtgtgttgtgtatctctgttctatgtatcaaacagGTCAAAATTTGGTGCACAAAGCAGGAAGCTAGCGTTCTTAACATTGACATGAAAGCAAATATTTGTTCGGTCAAGTATAATCCTGGATCTAGCATTTACG
| ||| || | | || | | || || |||||| | || | | | || ||||| | | | ||||| ||| | ||||||||||| || ||||| || || | || ||||| ||||||||||||||||| ||||| || |||||||||||||| ||| | ||||
atgaatattaagttcatgaa--cacaacaacagatttttggtgtatgcattttcaagtaaggacaaaaaagaagaaataattacggctgttgtttatg----gcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S135_17V6.1 (Physcomitrella patens), 3'ss of exon 9
----------------------------------ttagagtatgtggaattttagcagt-aagct------aactctgattgatttttcattttag-atgagtttcagtgtgttgtgtatctctg----ttctatgtatcaa---acagGTCAAAATTTGGTGCACAAAGCAGGAAGCTAGCGTTCTTAACATTGACATGAAAGCAAATATTTGTTCGGTCAAGTATAATCCTGGATCTAGCATTTACG
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gtaacctgttgaaatctggtgaacttaatcactcttgtacttgatgcggttctgtttttcaagctttttcaaactcaggttatttggagttttccgcatcatgtttaatatgcggttgatccgaaatgtttttatgttactgtttgcagGTGAAGATATGGTGCACGAGGCAAGAGTCAAGCGTGATAAATATAGACATGAAGGCAAATATTTGCTGTGTGAAGTATAATCCTGGATCAAGCAGCTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcattttagatgagtttcagtgtgttgtgtatctctgttctatgtatcaaacagGTCAAAATTTGGTGCACAAAGCAGGAAGCTAGCGTTCTTAACATTGACATGAAAGCAAATATTTGTTCGGTCAAGTATAATCCTGGATCTAGCATTTACG
tttagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagagtatgtggaattttagcagtaagctaactctgattgatttttcattttagatgagtttcagtgtgttgtgtatctctgttctatgtatcaaacagGTCAAAATTTGGTGCACAAAGCAGGAAGCTAGCGTTCTTAACATTGACATGAAAGCAAATATTTGTTCGGTCAAGTATAATCCTGGATCTAGCATTTACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - -gtatgtg
- - - - - - - - - - - - - - - - - ctgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtg