Sequence
atgc intronic sequence ATGC exonic sequence...tgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatcatgtgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063792_T07 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 6
------------------------------------------------------------------------tgcagcctgtcattaatccattactcatgctt----------gtactccagggagtatctaacatc--atgtgat------gtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
|||| ||||||| | | || || |||||| | || ||| || |||| | | | || | |||| | |||||| | ||||| | |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||||||||| ||||||||||||||||| |||||||||
gtgtgtgcacagttccttctgttactcttattaccacactaattagcagatctagattattcttccataaattgcatgctgtcatcagttgatagctgatgctttctttgcttcatccttttaggaatacctaatacctaacctgctttgtttgtttatatatttatcttctctgtaatgtgtgttgcagTTATGCATGAATTGCGCCTCATTCACACTGATTTAAAGCCTGAGAACATTCTTCTTGTTTCTCCAGAGTACATTAAAGTGCCCGATTACAAA
upper sequence: GRMZM2G063792_T07 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 6
-tgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatcatg-tgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
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ctttaaactttgtttactgcttgcattggattttggatttaattagggttt--cattgtgactctgttgctgaagttgggtggttttgataatactttgcagTTATGCATGATTTACGCCTCATACATACGGATTTGAAGCCTGAGAATATACTTCTAGTGTCTCCAGAATATGTTAAAGTTCCAGACTACAAG
upper sequence: GRMZM2G063792_T07 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0137g00580.t01 (Vitis vinifera), 3'ss of exon 6
--tgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatcatgtgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
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tttatgaaataaaaataatatggagtttgagatgg-ataattttgtttatttgctatcctacagagtgctaatgttgactttgac-ctataaaaatttgcagTCATGCATGATTTGCACCTCATCCACACTGACTTGAAGCCTGAGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctaacatcatgtgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
atctaac putative branch site (score: 2)
atgtttttgtattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatcatgtgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
tgcagcc
- - - - - - - - - - - - - -tgcttgt
- - - - - - - - - - - - - - - - - - - - - - - - - aacatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgatg