Sequence
atgc intronic sequence ATGC exonic sequence...gaggcagccagatttttcttttgtttaaatcgcattacattgaagcaagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 18
-----gaggcagccagatttttcttttgtttaaatcgcattacattgaagcaagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaa--cagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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tttcttggattattaaggtatcactttgggtgaacta----acttttatatttactgttattcacttgatttctgt---aattgctcatgtgtttgctaaaaaacagGAACTGTTGTTGATTCAAAGATCTGCCACCCATCAGAGTTTGATTTCTACCTCTGTAGCCATGCTGGAATTCAG
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 10
-------gag-gcagccagatttttcttttgtttaaatcg------cattacattgaagcaagatgtaacaccctac---atttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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gtacaatgagtgttcctgaattgctcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattgtctaattggactaactttttaaataattttcatctgtttt---cagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 19
gaggcagccagatttttcttttgtttaaatcgcattacattgaagcaagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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-------------------------------------gtttgtaggaaagtttg------ttcaatgtgcttc--acaact---aaaacgcttttgctagGTACTGTGGTGGATACGAAGATCTGTCATCCCACGGAATTTGATTTCTACCTCTGCAGTCACGCTGGAATACAG
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: EFJ19862 (Selaginella moellendorffii), 3'ss of exon 17
gaggcagccagatttttcttttgtttaaatcgcattacattgaagcaagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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------------------------------------gtgctgttgccgtttataa-gtggcgaatttagataactaatgagagaccgttttccttcacagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: EFJ14095 (Selaginella moellendorffii), 3'ss of exon 17
gaggcagccagatttttcttttgtttaaatcgcattacattgaag-caagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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---------------------------------gtgctgttgccgtcaataagtggcgaatt-tagataactaatgagagacc----gttttccttcacagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 19
gaggcagccagatttttcttttgtttaaatcgcattacattgaagcaagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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-------------------------------------gtttgtagcaaagtttg------ttcaatgtgct--tgacaact---aaaacgcttttgctagGTACTGTGGTGGATACGAAGATCTGTCATCCCACGGAATTTGATTTCTACCTCTGCAGTCACGCTGGAATACAG
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: EFJ19863 (Selaginella moellendorffii), 3'ss of exon 17
gaggcagccagatttttcttttgtttaaatcgcattacattgaagcaagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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----------------------------gtgctgttgccgttaa-taagtggcgaatttagataactaatgagagaccgtt------ttccttga--cagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGGCGGCATTCAG
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
lower sequence: EFJ14096 (Selaginella moellendorffii), 3'ss of exon 17
gaggcagccagatttttcttttgtttaaatcgcattacattgaagc-aagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
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---------------------------------gtgctgttgccgttaataagtggcgaatt-tagataactaatgagagacc----gttttccttcacagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
tacatttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaggcagccagatttttcttttgtttaaatcgcattacattgaagcaagatgtaacaccctacatttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- -gcagcca
- - - - - - - - - ttttgtt
- - - - - - - - - - - - - - - - - - - - tgaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgctc