Sequence
atgc intronic sequence ATGC exonic sequence...atcctttgggtgtcatctgaggatcctgtgtgatctctatagctttgtcgctttgtctttgtagcatctgaatgatttttccccttctttgtttctgcagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G046050_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g44260.1 (Oryza sativa), 3'ss of exon 13
atcctttgggtgtcatctgaggatcctgtgtgatctctatagctttgtcgctttgtctttgta-gcatc-----tgaatg----atttttccccttctttgtttctgcagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
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-------tgatttcatcttag---tctgtatgatctctatagttttcttgctgtgtatccctacacattgctgatgcatatcaaattctctcactattttgtttttgcagTGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAG
upper sequence: GRMZM2G046050_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 7
-------------------atcctttgggtgtcatctgaggatcctgtgtgatctctatagctttgtcgctttgtctttgtagcatctgaat-gatttttc---------cccttctttgtttctgcagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
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gtgctattatgtcttttctcactgtgaaatctaaatttaaaattttcaatgtattccttcatatgatattcaagtttgtttggcatctagcttggctccttaccccctgtcccttttgttttttggtagTGATGGATGGGATAGGACAAGCCAGTTGGTTTCACTTGCTAATTTGTTGCTTGATCCATATTATCGGACATTCACAGGGTTTCAG
upper sequence: GRMZM2G046050_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 7
-----------------atcctttgggtgtcatctgaggatcct--gtgtgatctct-ata-gctttgtcgctttgtctt---tgtagcatctgaa-tgatttttccccttctttgtttct--gcagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
|| | | | | ||| || | | | ||| | ||| | | | | ||||| || | |||||| | | | | ||||||| | | |||||||||||||| | |||| ||||||||||||||||||| ||| ||||||||||| |||||||| || |||| || || |||
gtgctatgatgtattttctcactgaaatctaaattgaaaattttcaatataatccttcatatgatattcaggtttgttttgcatctagcattgcaccttaccccctgcaccttttgttttttggtagTGATGGATGGGATAGGACAAGCCAGTTGGTTTCACTTGCTAATTTGTTGCTTGATCCATATTATCGGACATTCACAGGGTTTCAG
upper sequence: GRMZM2G046050_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 13
-------------------------------------------atcctttgggtgtcatctgaggatcctgtgtg-atctctatag--ctttgtcgctttgtctttgtag-------catctga---atgatttttccccttctttgtttctgcagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
| || | || || || || | || | | || | | || | | || || || || || || || | | | | || ||||||||||||||||| | ||||| ||| | ||||| ||||| || |||||||||||||| || || ||||||| ||| || |||
gttagctaccttgactcacatcaccggccaactgcttaaccaatttctgtcctcgtgataagatgaatatacgtctgtttgtagaaaaccttctattatcatcagggtgaaaaagattatttgttatatcatgactcttcgtatgtcattgcgcagTGATGGATGGGACAGAACAACTCAGCTTGTTTCTCTTGCGTGCTTATTGCTTGATCCATACTACAGAACTTTTGCTGGGTTTCAG
upper sequence: GRMZM2G046050_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G04540.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------atcctttgggtgtcatctgaggatcctgtgtgatctctatagctttgtcgctttgtctttgtagcatctgaatgatttttccccttctt-tgtttctg--cagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
|| | | | || | | | | || | || | || | ||| |||| | | | || | ||| | ||| ||| |||||||||||||||| | ||||| ||| ||||||| ||||| || |||||||||||||| || || |||| || ||| || |||
gttagctatatatgtgataagacaaagatgcatttgtttcaagcaggcacttttatttacatcaggtagttaactattctcagtagattttttgttatatcctgacttgtgatgtcactgtgcagTGATGGATGGGACAGAACAACTCAGCTGGTTTCTCTTGCATGCTTATTGCTTGATCCTTACTACAGAACATTTTCTGGGTTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcgctttgtctttgtagcatctgaatgatttttccccttctttgtttctgcagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
tttttccccttctttg CT-rich tract
aatgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcctttgggtgtcatctgaggatcctgtgtgatctctatagctttgtcgctttgtctttgtagcatctgaatgatttttccccttctttgtttctgcagTGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - -gatcctg
- - - - - - - - - - - - - - - - - - - - - - -tgtcgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatctg