Sequence
atgc intronic sequence ATGC exonic sequence...atatgcatctatgcactgaacactgtttcttaattaaattattttgatgcactgagcactgtttattaattaaactattttgacccttccatcatttcagGTCGATTTGGAACACAACCATTATAGGTCGTTTCAGGGTTTGACATGCTTGATGCAGATTTCAACAAGAACAGAGGACTTTATTGTTGACACTCTTAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g30100.1 (Oryza sativa), 3'ss of exon 2
atatgcatctatgcactgaacactgtttcttaattaaattattttgatgcactgag--cactgtttattaattaaact----attttgacccttccatc--atttcagGTCGATTTGGAACACAACCATTATAGGTCGTTTCAGGGTTTGACATGCTTGATGCAGATTTCAACAAGAACAGAGGACTTTATTGTTGACACTCTTAAGC
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----ctccctattctcc-agtgttgtacagcatttactgtttttcggt---ctgagttctctctttgttaatggaagttaatgtttctcttgttccacctgttttcagGTTGATTTGGAACACAACCACTATAGGTCTTTTCAGGGTCTGACCTGCCTGATGCAGATTTCAACTAGAACTGAGGACTTTATAGTGGACACTCTTAAGC
upper sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G29260.1 (Glycine max), 3'ss of exon 2
atatgcatctatgcactgaacactgtttcttaattaaattattttgatgcactgagcactgtttat-taattaaactattttgacccttccatcat---ttcagGTCGATTTGGAACACAACCATTATAGGTCGTTTCAGGGTTTGACATGCTTGATGCAGATTTCAACAAGAACAGAGGACTTTATTGTTGACACTCTTAAGC
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--atttaattattgtcccagtattctctctt--ttagatacttctcctgtccctttctttcattatattcttttgacatttttatcttgacgtggaatgttaagGTGGATTTGGAACATAATCATTATCGGTCTTTCCAAGGTTTGACTTGCTTGATGCAAATCTCAACCAGGACTGAAGATTTTGTTATAGATACTCTGAAGG
upper sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G24130.1 (Glycine max), 3'ss of exon 3
----atatgcatctatgcactgaacactgtttcttaattaaattattttgatgcactgagcactgtttattaattaaactattttgaccct---tccatcatttcagGTCGATTTGGAACACAACCATTATAGGTCGTTTCAGGGTTTGACATGCTTGATGCAGATTTCAACAAGAACAGAGGACTTTATTGTTGACACTCTTAAGC
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gctgatattcccctttcttgtagtcactccctcc-------attacttccattcattgcattcttttgacttatttatgtataatgacttgaagttgaaatgtatagGTTGATTTGGAACATAATCAATATCGGTCTTTCCAAGGTTTGACTTGCCTGATGCAAATTTCAACAAGGACTGAAGATTTTATTGTTGACACATTGAAAC
upper sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 2
----atatgcatctatgcactgaacac-tgtttcttaattaaattattttgatgcactgagcactgtttattaattaaactattttgacccttccatcatttcagGTCGATTTGGAACACAACCATTATAGGTCGTTTCAGGGTTTGACATGCTTGATGCAGATTTCAACAAGAACAGAGGACTTTATTGTTGACACTCTTAAGC
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ctctccttgattagataagccaaaaaaatatattcaagtttgagt-tgccaatgc--ttatttctcccctttctcttaagttttttg--tttttgctctttttagGTTGATCTGGAGCATAATCAGTATAGATCTTTTCAAGGATTGACATGCTTGATGCAAATTTCCACCAGAACAGAGGATTATATAGTTGATACATTTAAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgcactgagcactgtttattaattaaactattttgacccttccatcatttcagGTCGATTTGGAACACAACCATTATAGGTCGTTTCAGGGTTTGACATGCTTGATGCAGATTTCAACAAGAACAGAGGACTTTATTGTTGACACTCTTAAGC
cccttccatcatttc CT-rich tract
actgtttattaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatgcatctatgcactgaacactgtttcttaattaaattattttgatgcactgagcactgtttattaattaaactattttgacccttccatcatttcagGTCGATTTGGAACACAACCATTATAGGTCGTTTCAGGGTTTGACATGCTTGATGCAGATTTCAACAAGAACAGAGGACTTTATTGTTGACACTCTTAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA