Sequence
atgc intronic sequence ATGC exonic sequence...gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g02850.2 (Oryza sativa), 3'ss of exon 1
------gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcg-gcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
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gggaactttgtagcttaccgtatg--cttgaattgtatagtgatggagacatgggcatcagtctcatttgagtcgtttgcacttttgggag--aattt---ttgcagGTCCAATTGATCAGAATCGAATGTAGAGTACCTGAGTACGGATGGACGACACAGAAGGTGTTCCATTTCATGAACTTTATTGTGAATGGAG
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G09640.1 (Glycine max), 3'ss of exon 1
gtgctggtttgat-ttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctga-attcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
|| || || | | ||| | || | || | | | | || ||| ||| | | | || ||| ||||| ||||| | |||| | || || ||||| |||||||| ||||| ||||||||||| || || ||||| || ||| |||||||||| |
------gtacgacgccgtttccgccagatttctatttccacttccgttagggtttcctttccaattatttatgatatttttaataat--atgatgattttagGTTCAATTAGTTCGAATACAATGGAGAGTGCCGGAGTATGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTCATTGTGAATGGGG
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatt--tctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
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-tttctttatgaatcttcttttccataaacgaaac-agagtgatttttttgtttttttttttttaaatttctaatctgatattatttcttaattttttaaagGTTCAACTGGTTCGGATACAATTGAGAGTCCCAGAGTATGGTTGGACCACGCAGAAGGTGTTCCACTTTCTCAATTTCCTGGTGAATGGGG
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: EDP05347 (Chlamydomonas reinhardtii), 3'ss of exon 2
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATG-GCG--------
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-----------------------------------gtgagtacacgagtcgtcggttccgcc---aactcggaaggctcacactgagaataattgcgcagGTACAACTGCTGCGGCTGCAGCTGCGCGTGCCAGAGTATGGCTGGACCACCCAGAAGGTGTTCCACCTTCTAAACTGCTTGGTGTCTGTGCTGCGCTGCT
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ15891 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatt-tctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
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---------------------------------gtaagttagttgattcttgtaagttagctgtgtttcct--atcgattttcttcctttgtttcttttagATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ33253 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
| || || | || | || || | | | || ||| ||| || || | ||| || || | | ||||| | | ||||||| |||||||| |||||||||||||| ||||||||| | || || ||| |||| ||||| |
---------------------------------gtaagttagttgattcttgtaagttagctgtgtttccta---tcg----attttcttcctttgttagATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
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--------------------------gtatggaatccgactagttttctggtcttttctattgattcttggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG
upper sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ30530 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
| |||| | || | || || || | | | |||||| | |||||| | | || | || | ||| | |||||| | || || |||||||| ||||| ||||||||||| |||||||| || || |||||||| ||||| |
-------------------------gtatggaatccggctagtttgt-tggtcttttctattgattctcggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACGACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
tttctatt CT-rich tract
tttaatttctattgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtccgccgagaattctgaattcgtggtgtttaatttctattgtagGTCAAATTAATCAGAATCGAGTGCAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAATGGCG
gtgctgg
- - - - -tgatttg
- - - - - - - - - - - - - - - - - - - - - gcggcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgtt