Sequence
atgc intronic sequence ATGC exonic sequence...catatggaatggctcagattggtcatctgtttaaaactcatgcctggttctgtttcatatccttgactctattggtgtgcatggttcatgaaatttatagGCTTACTCTACTGTTGGTACACCTGATTACATTGCACCCGAGGTACTCCTGAAGAAAGGATATGGAATGGAATGTGACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g19290.1 (Oryza sativa), 3'ss of exon 5
-catatggaatggctcagattggtcatctgtttaaaactcatgcctggttctgtttcatatccttgactctattg-gtgtgcatggttcatgaaatttatagGCTTACTCTACTGTTGGTACACCTGATTACATTGCACCCGAGGTACTCCTGAAGAAAGGATATGGAATGGAATGTGACTG
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gtcgatagaaaattgtagaaaaaatggc-atggtaatcatttgtttgccaaagagccttggcagtgtgttttttatgtatttact-ttcatgataattgcagGCTTATTCAACAGTTGGTACACCTGATTACATTGCTCCGGAGGTACTATTGAAGAAAGGATATGGAATGGAGTGTGACTT
upper sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT1G30640.1 (Arabidopsis thaliana), 3'ss of exon 6
catatggaatggctcagattggtcatctgtt-taaaactcatgcctggttctgtttcatatccttgactc-tattggtgtgcatggttcatgaaatttatagGCTTACTCTACTGTTGGTACACCTGATTACATTGCACCCGAGGTACTCCTGAAGAAAGGATATGGAATGGAATGTGACTG
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--tttgcattaatctcctttggaagtttcctattttagttatttatatgacctttccatataatcggagcgtaataagatggctctttcgtgtatcgatcagGCTTTTTCTACAGTAGGAACTCCCGATTACATTGCCCCTGAGGTGCTGCTGAAGAAAGGGTATGGAATGGAGTGTGATTG
upper sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 6
--catatggaatggctcagattggtcatctgtttaaaactcatgcctggttctgtttcatatccttgactctattggtgtgcatggttc----atgaaatttatagGCTTACTCTACTGTTGGTACACCTGATTACATTGCACCCGAGGTACTCCTGAAGAAAGGATATGGAATGGAATGTGACTG
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gccactctggactacacttctt--ttatttgaataaaaatc---tcaggtattggat-atattttgagtctgttttgtatttatagttctgtcatatgctatctagGCTTATTCAACAGTTGGGACTCCCGACTACATTGCCCCAGAAGTACTGCTGAAGAAAGGATATGGAATGGAGTGTGATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttctgtttcatatccttgactctattggtgtgcatggttcatgaaatttatagGCTTACTCTACTGTTGGTACACCTGATTACATTGCACCCGAGGTACTCCTGAAGAAAGGATATGGAATGGAATGTGACTG
ccttgac putative branch site (score: 4)
ttcatgaaatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catatggaatggctcagattggtcatctgtttaaaactcatgcctggttctgtttcatatccttgactctattggtgtgcatggttcatgaaatttatagGCTTACTCTACTGTTGGTACACCTGATTACATTGCACCCGAGGTACTCCTGAAGAAAGGATATGGAATGGAATGTGACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA