Sequence
atgc intronic sequence ATGC exonic sequencegtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 3'ss of exon 3
gtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcaca-gctcaag-cctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
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------------------------------gtatatataccctattactt--accatcatttttttaacccaactgcaaacatgctgatgacttgactaattgatttgtgtagATTTCTAAAAGCAAGGAGATTTGACATTGAGAAAGCAAAGCAAATGTGGACTGACATGCTTAAATGGAGGAAGGAGTACGGTACAGATACAATTGTTGAG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA12G04460.1 (Glycine max), 3'ss of exon 2
gtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagt---gcacagctcaagcctaactaaatctggtcttt----agATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
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------------------------------gtgtgccttgcccaaagtaattttcttcatttcccgaaatggaatgttttgcttaattttcttcttcttattttttttacttttacagGTTCCTGAAAGCAAGGAAGTTTGATATTGAAAGAGCAAAGCATATGTGGGCTGATATGCTACAATGGAGGAAGGAGTTTGGTACTGACACTATTATGGAG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA14G07850.1 (Glycine max), 3'ss of exon 2
gtatatgtatccagtaaattatgatgcaccttttgtttagct-tgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
| ||| | | || || ||| |||| | | | | | || || ||| | || | | | | | ||||| | || ||||| | |||||||||||||||||||| || ||||||||||| |||||| | ||| | || ||| ||| || ||||| |||||||| ||| |||||
-gagatggtatctttgcat----attcacagtttgcatgcttctaacacagatgacttgtttgccttaaagtataa-tataaaaattgaat-taactgatgttg-----cagATTCTTGAAAGCAAGGAAATTTGATATTGAGAAAGCAAAGCACATGTGGGCCAACATGATCCACTGGAGGAAAGAATATGGTACTGATACAATTATGGAG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G03300.1 (Glycine max), 3'ss of exon 2
gtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
| | ||| | | || || |||| |||| | | | || ||| | | || || | | || ||| | ||||| | ||||||||||| |||||||| || ||||||||||| |||||| ||||| | || ||| ||| || ||||| || ||||| ||| |||||
--------------------gttacaaaccctccttactagttagtg-gtta-cattcacatatggatat----agtttaaaactgaattcaacatatttcttgc----agATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G37150.1 (Glycine max), 3'ss of exon 2
gtatatgtatcca-gtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
|| ||||| | | ||| | | | | | || | | |||| | || | | | || | | | || ||||| | || | ||||| | |||||||||||||||||||| || ||||| ||||| |||||| | ||| | || ||| ||| || ||||| |||||||| ||| |||||
--atg-gtatctttgcatattctcagtttacatgcttctaacacagatgacttgtttgcctt-----agagtataa-tataaaacttgcat-taactgatgct--cttgcagATTCTTGAAAGCAAGGAAATTTGATATTGAGAAAGCGAAGCACATGTGGGCCAACATGATCCAATGGAGGAAAGAATATGGTACTGATACAATTATGGAG
upper sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
gtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatc---tggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
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--------------tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatttttccaaatcacaagtgcacagctcaagcctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
aactaaa putative branch site (score: 2)
tcttt putative PPT
taactaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatctggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG