Sequence
atgc intronic sequence ATGC exonic sequence...tttttcttgttttgtttcattgactgtcataaaaagagatatttatttttgtttcataaactgcatgttatgtatctgctttgtttacagcactttatagCTTGAATGTCGAGCAGTGTTCTATCACGTCAAGAACTGTTCAGAAGATGACAGATGCACTCCATGAAGAGTCTGTCCTTTCACATCTCTCATTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g54170.1 (Oryza sativa), 3'ss of exon 4
-------------------tttttcttgtttt-----gtttcattgactgtcataaaaagagatatttatttttgtttcataaactgcatgttatgtatctgctttgtttacagcactttatagCTTGAATGTCGAGCAGTGTTCTATCACGTCAAGAACTGTTCAGAAGATGACAGATGCACTCCATGAAGAGTCTGTCCTTTCACATCTCTCATTAG
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gtaggtactgtttatggcattttctgtgtttttgccagccatatttttctttaatggcaccaacctttaatttcctcttatagaatgtgtgctctgtttacatatcgta-acagCACTGTACAGCTTGAATGTCGAGCAATGTTCTATCACATCAAGAACAGTTCAGAAGATGGCAGATGCACTGCATGAAGGGTCTGCCCTTTCACATCTCTC-----
upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g54280.1 (Oryza sativa), 3'ss of exon 14
-------------------------tttttcttgttttgtttcattgactgtcataaaaagagatatttatttttgtttcataaactgcatgttatgtatctgctttgtttacagcactttatagCTTGAATGTCGAGCAGTGTTCTATCACGTCAAGAACTGTTCAGAAGATGACAGATGCACTCCATGAAGAGTCTGTCCTTTCACATCTCTCATTAG
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gtaggtactgtttttggcactttctgtgttttcgccagccttctttttctttgatggcaccagct-tttaattacctcttatagAATGTGTCTTCTGTTTACATATCGTA-ACAGCACTGTACAGCTTGAATGTCGAGCAATGTTCTATCACATCAAGAACAGTTCAGAAGATGGCAGATGCACT-----------------------------------
upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv04s0044g00860.t01 (Vitis vinifera), 3'ss of exon 14
--tttttcttgttttgtttcattgactgtcataaaaagagatatttatttttg------tttcataaactgcatg--ttatgtatctgctttgtttacagcactttatagCTTGAATGTCGAGCAGTGTTCTATCACGTCAAGAACTGTTCAGAAGATGACAGATGCACTCCATGAAGAGTCTGTCCTTTCACATCTCTCATTAG
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agtgtcaatggtatcaatttgttaaatatggttgcatgcggattcttctattgcagggattttgctatttcttttgcttatggttctctttgtcttgtagCCCTTTATTACTTGAATATAGAGCGGTGTTCTATCACGTCTAGAACTGTTCAGAAGGTTGCTGATGCACTTGATTCTCAATCTGTACTTGCACAGCTTTG----- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgtttcataaactgcatgttatgtatctgctttgtttacagcactttatagCTTGAATGTCGAGCAGTGTTCTATCACGTCAAGAACTGTTCAGAAGATGACAGATGCACTCCATGAAGAGTCTGTCCTTTCACATCTCTCATTAG
tttcataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttcttgttttgtttcattgactgtcataaaaagagatatttatttttgtttcataaactgcatgttatgtatctgctttgtttacagcactttatagCTTGAATGTCGAGCAGTGTTCTATCACGTCAAGAACTGTTCAGAAGATGACAGATGCACTCCATGAAGAGTCTGTCCTTTCACATCTCTCATTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - -tgttttg
- - - - - - - tttcatt
- - - - - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgcttt