Sequence
atgc intronic sequence ATGC exonic sequence...tttttatggttcatgcacttatccttctgatttttattagcatgtgtccctttatctgatttcatgattgacttattattctgtttgtcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os03g15900.2 (Oryza sativa), 3'ss of exon 12
-tttttatggttcatgcacttatccttctgatttttattagcatgtgtccctttatctgatttcatgattgacttattattctgtttgtcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
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ttgtgcatacattttgtagctattaatttgattattaataatcttttatcatttg-ctaaatacatggttgatttattattcgtttgttcttacatgatagGCAACTCCTGATATGGCCGTGACTCTGCTTGAGATTGCTAGAATTTTTGCTACCAAAGTTCCTGGCAAGATCGATGCTGATGTACTACAACTCCTGTGGA
upper sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 14
tttttatggttca-tgcacttatccttctgatttttattagcatgtgtccctttatctgatttcatgattgacttattattctgtttgtcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
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-ttgtatatcttggtgcatgcaatgggtaaatgtgcttttgtattcatgcataatggaaaacctgagtttgcttaatagttatttcaattttgctttgaagGCTTCTCCAGATATGGCTGTTACTCTTCTTGAAATTGCAAGAATATTTGCTACCAAAGTTCCAGGAAAGGTTGATGCTGATGTGTTACAACTGCTCTGGA
upper sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 14
tttttatggttca-tgcacttatccttctgatttttattagcatgtgtccctttatctgatttcatgattgacttattattctgtttgtcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
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-ttgtatatcttagtgcatgcaatgggtaaatgtgcttttgtattcatgcataatagaaaacctaagtttgcttaatagttatttcaattttgctttgaagGCTTCTCCAGATATGGCTGTTACTCTTCTTCAAATTGCAAGAATATTTGCTACCAAAGTTCCCGGAAAGGTTGATGCTGATGTGTTGCAACTGCTCTGGA
upper sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 13
lower sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 15
tttttatggttcatgcacttatccttctgatttttattagc-atgtgtccctttatctgatttcatgattgacttatta-ttctgtttg--tcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
|||| | | | | || ||| | | || ||| ||| |||| | ||||| ||| ||| ||| | || | | ||||||| || ||||||||||| | ||| || || ||||| ||||| |||||||| |||||||| || || ||||| |||||||| ||||| || ||||||
--cttatccattgcgttgaaactgaagaaaaacttgttattgaggagtaatgttaactgttttctt--ctgactagttaactctttttaatttttctttcacagGCAACTCCAGATATGGCTGTTATTCTTCTCGAAATTGCCAGAATATTTGCCACCAAAGTTCCAGGGAAAATTGACGCTGATGTCTTACAGCTGCTATGGA
upper sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 15
tttttatggttcatgcacttatccttctgatttttattagcatgtgtccctttatctgatttcatgattgacttattattctgtttgtctt--acatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
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-taccatataaaatg-gtttttgcttccttttgtactgtgtatatacctggtttgtgtacttaatcaatattttattttctttttccttgttggcttattagGCAACTCCAGATATGGCTGTGACTCTCCTTGAAATTGCAAGAATTTTTGCTACTAAAGTTCCTGGGAAGATTGATGCTGATGTATTACAACTACTATGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtccctttatctgatttcatgattgacttattattctgtttgtcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
gtcttac putative branch site (score: 3)
tttgtctt CT-rich tract
attgacttattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttatggttcatgcacttatccttctgatttttattagcatgtgtccctttatctgatttcatgattgacttattattctgtttgtcttacatgatagGCAACCCCTGATATGGCTGTGACTCTGCTTGAGATTGCAAGAATTTTTGCCACTAAAGTTCCTGGAAAGATTGATGCTGATGTTCTACAGTTGTTATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - -ttcatgc
- - - - - - - - - - - ccttctg
- - - - - - - - - - - - - - - - - - - agcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt