Sequence
atgc intronic sequence ATGC exonic sequence...gctagagagagctcttttagcttatttgcagtttttttttgggacaaatattcagctagcttctctgtcaacctgattttaacatttttctgttatatagAAAGATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G165747_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S33_110V6.1 (Physcomitrella patens), 3'ss of exon 1
gctagagagagctcttttag--cttatttgcagtttttttttgggacaaatattcagctagcttctctgtcaacctgatttta-acatttttctgttatatagAAA-GATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT
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---cggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagcagAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGCTGC-
upper sequence: GRMZM2G165747_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
-gctagagagagctctttt-agcttatttgcagtttttttttgggacaaatattcagctagcttctctgtcaacctgatttta-acatttttctgttatatagAAA-GATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT
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tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC----
upper sequence: GRMZM2G165747_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S27_81V6.1 (Physcomitrella patens), 3'ss of exon 1
-gctagagagagctc--ttttagcttatttgc--agtttttttttgggacaaatattcagctagcttctctgtcaacctgat----tttaacat---------ttttctgttatatagAAAG--ATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT
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acatggaaatggtagaattgcatcttattcacctgatgattagcgtgtgcgaatattcatacgatctctcaggctaacagaaattgttcactgtctgcagACGTTCTTAGTTAAATCATAAACCATGGCTTCCCACGTAGTCGGATACCCCCGGATGGGCCCCAAGAGGGAGCTCAAATTCGCCTTGGAGTCTATGTGGG--------------------
upper sequence: GRMZM2G165747_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S399_19V6.3 (Physcomitrella patens), 3'ss of exon 1
--gctagagagagctcttttagcttat---ttgcagtttttttttgggacaaatattcagctagcttctctgtcaacctgattttaacatttttctgttatat----agAAAGATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT
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gtggtttagtgtacgtaactgaatgatgcgttggtgcatctcgttcggtatcgaaccgaggta-tatcttcgttggctaatgtgttgcacctctctcacagATTTCAAGAACCATGACTTCTCACGTGGTTGGATATCCCCGCATGGGCCCCAAGAGGGAGCTCAAGTTTGCTCTTGAGTCGATGTGGGATGGCAAGACCC-------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatattcagctagcttctctgtcaacctgattttaacatttttctgttatatagAAAGATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT
ttttaac putative branch site (score: 2)
tttttctgtt CT-rich tract
attttaacatttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctagagagagctcttttagcttatttgcagtttttttttgggacaaatattcagctagcttctctgtcaacctgattttaacatttttctgttatatagAAAGATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - tgcagtt
- - - - - - - - - - - - - - - - - - - - -ggacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - ttcagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgattt