Sequence
atgc intronic sequence ATGC exonic sequence...catgctagaaagcctaggcaggttgggttggctcaaggccggagggagggaagggttacaccttttaaaatggtatttaagaccttatttttgtctgcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g25734.1 (Oryza sativa), 3'ss of exon 4
------------------------------------------------------------------------------------catgctagaaagcctaggcaggttgggt--tggctcaaggccggagggagggaagggttacaccttttaaaatggtatttaagaccttattttt---gtctgcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
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gtatggaaagctcgctgtttagtagccttttgttttcttcagtttattactgctgcttttatgattgttagcatttgaccttctctcactgaaatattgtcatggcatatgtaataaattacttttttattacttgtagg-tcatgtgctatatt-tgctgcttaagaatctatttttgttgtctgcagGTACAAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATT
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 4
-------------catgctagaaagc-ctaggcaggttgggttggctcaaggccggagggaggga---agggttacaccttttaaaatggtatttaagac-cttatttttgtctgcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
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gtatgtgttccttctggttatttaatattacgaaaactttcttgtcattttcttgcatagcaaaatttagcatgcaattttttagaatgttgtatggcatgtttgtgtatattcacagGTGCAAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATTGAGGCTTTCTATAATGCAAATCTGGGAATCACCAAAAAGCCTGTGCCTGACT
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 4
-----------------------------------catgctagaaagcctaggcaggttgggttggctcaaggccggagggagggaagggttacaccttttaaaatggtatttaagaccttatttttgtct--------------------------------------------------------------gcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
|| || || || || | | ||||| || ||||| | |||||||| || |||||||| ||||||||||| ||||| || ||||||||||| ||||||| ||||| ||||| | || || |
gtgattcctggtgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnaaaactttcttgttattttcctgcatggtaaattagcatgcaattttttgagaatatgtacggcatgtttgtgtgtattcacagGTGCAAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATCGAGGCTTTCTATAATGCAAATCTGGGAATCACCAAAAAGCCTGTGCCTGACT
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G48300.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------------catgct--agaaagcctaggcaggt---tgggttggctcaaggccggaggga-----gggaagggttacaccttttaaaatggta---tttaagaccttatttttgt---ctgcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
||||| || ||| || | | ||| ||| | | | | | | ||| | | | || | | | || || | || |||||||| || ||||| |||||||||||||| |||||||| |||||||| || |||||||||||||| || || | ||||| |||||||| ||| | || ||||
gtgagtgtttatattcatgtttacaacatctagtttgtattctgatgctcaagcaagtctctgttactctatggtttgctttcggattcaacagcttcttgtagctgattatgctatgcagaaggcaaaacctgctaactttgatcatgggcactgcagGTGCAAGCTTACCTATATGATGGTTACTGGGAAGACATTGGTACTATAGAGGCATTTTATAACGCTAATCTTGGAATCACCAAGAAACCAGTTCCTGATT
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 3'ss of exon 4
---catgctagaaagcctaggcaggttgggttggctcaaggccggagggagggaagggttacaccttttaaaatggtatttaagaccttatttttgtctgcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
|| | || | | | | | | | | | |||| | | | | || || | | |||| |||| || ||||| | |||||||| || |||||||| ||||||||||||||||| |||||||| || || ||||| || || |||||||| | |||||||
tatgatcactggaaattccgataatcaaaatgttattttatctgcatttgccttcttaagagaactttca---tagagtcaaattgctgcataatctctgtagGTGCAAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATTGAGGCTTTTTATAACGCTAATTTGGGGATCACAAAGAAGCCGGTGCCAGATT
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 4
lower sequence: PP1S2_337V6.1 (Physcomitrella patens), 3'ss of exon 4
catgctagaaagcctaggcaggttgggttggctcaaggccggagggagggaagggttacaccttttaaaatggtatttaagaccttatttttgtctg----cagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
|| | || | | | | |||| | | | || | | || | | | | || | | | ||||| ||||| || ||| |||||| || |||||||||||||| || ||||| || ||||| || |||||||| ||||| || |||||||| | || ||||
-atttagcgctgattaaagaagccgacct--ttcaacgtcatcatatgcctttcatt-cgtaactccaagtatcttgccaaatgctaatactaggtaatatcagGTGCAGGCCTACTTATTTGATGGCTACTGGGAAGATATTGGAACTATTGAAGCTTTTTACAACGCAAACTTAGGAATCACGAAGAAGCCCGTTCCTGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagggaagggttacaccttttaaaatggtatttaagaccttatttttgtctgcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
ccttatttttgtct CT-rich tract
ttttaaaatggtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgctagaaagcctaggcaggttgggttggctcaaggccggagggagggaagggttacaccttttaaaatggtatttaagaccttatttttgtctgcagGTTCAGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC