Sequence
atgc intronic sequence ATGC exonic sequencegttggtgaaatgtgatgctttatttctgattcatcggttgtgccttgaagagtcagtaagggaaaagctgaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g36960.1 (Oryza sativa), 3'ss of exon 2
----------------gttggtgaaatgtgatgctttatttctgattcatcggttg--tgcc----------ttgaagagtcagtaagggaaaagctgaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
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gttagtggaatgtggaagtggaagcttgcaatccctaggctttgtttgttcggttgtttgctagtggtattattaggaatttgatcacgacgaaaacgaattgcagATGGCTCTGATTGCTCGGTTGCAACACCCTTACATTGTTGAATTCAAAGAGGCTTGGGTTGAGAAG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G18340.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------gttggtgaaatgtgatgctttatttctgattcatcggttgtgcctt-----gaagagtcagtaagggaaaagctg---------aattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
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gtgagtttatttgtgtttgtgcgcgcacgcctgcatgcgtgtgctttttggttatccttgcttgtagatttgcttcatatacatggaatctgcttttgtttgtggaggggatttgactgttgctgtttgttggtaattgtagATGGCTCTTATTGCTCGAATCCAGCACCCTTACATTGTGGAATTCAAGGAGGCATGGGTTGAGAAG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA12G31330.1 (Glycine max), 3'ss of exon 2
-------gttggtgaaatgtgatgctttatttctgattcatcggttgtgccttgaagagtcagtaagggaaaagct---gaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
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gtaggcttttggtttcttcaatttcttgcttgttgatttgcttcgtgctctgtgatttgaccgttgttggctgttttgggaattgtagATGGCTCTTATTGCTCGAATTCAGCATCCCTACATTGTGCAATTTAAAGAGGCTTGGGTTGAGAAG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------gttggtgaaatgtgatgctttatttctgattcatcggttgtgccttgaagagtcagtaagggaaaa--gctg--aattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
| | || | || || | || || || | | || | || | | | | || ||||| |||||||||| |||||||| | ||||||||||||||||| |||||||||||||| ||||||||||||
gtgagtttattttttccgtgtgtgtctgcgtgccttgcgtgtgctttttggttatctctgctagt-agatttggatcaaaatcctggaatctgcttgtttgtggaggggatttaactgttgttgtttgttgctaattgtagATGGCTCTTATTGCTCGAATCCAGCACCCTTACATTGTGGAATTCAAGGAGGCATGGGTTGAGAAG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 2
-----------gttggtgaaatgtgatgctttatt-tctgattcatcggttgtgccttgaagagtcagtaagggaaaagctgaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
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gtaggttttaggtttcttcaatttcttgcttgttcatttgcttcgtgctctgtgatttgaccgttgtggactgtttcgg--gaattgtagATGACTCTTATTGCTCGAATTCAGCATCCTTACATTGTGGAATTTAAAGAGGCTTGGGTTGAGAAG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------gttggtgaaatgtgatgctttatttctgattcatcggttgtgccttgaagagtcagtaagggaaaagctgaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
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ctttggcgatccttcagtttgccttttgttttattgattatgttttcgcttatttggtctttgtttttttccccctacattttggcaat-ttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgattcatcggttgtgccttgaagagtcagtaagggaaaagctgaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
ttctgat putative branch site (score: 3)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtgaaatgtgatgctttatttctgattcatcggttgtgccttgaagagtcagtaagggaaaagctgaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG