Sequence
atgc intronic sequence ATGC exonic sequencegtaaaagtctcgagcctaaactccgtactctctctctcctcacgcgccgtcaccgtcagtacgtgctggaacgttgtggtgtcgatcagGTGGTCCACGATCGCGGCACAGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATGAAGCAGCAGCTCCGACAGGAGGCGCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G123202_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g45060.1 (Oryza sativa), 3'ss of exon 2
---------gtaaaagtctcgagcctaaactccgtactctctctctcctcacgcgccgtcaccgtcagtacgtgctggaacgttgtggt--gtcgatc--agGTGGTCCACGATCGCGGCACAGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATGAAGCAGCAGCTCCGACAGG---AGGCGCTC
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tctctttgcttacgcacgtagaaaccgggttgtagaccgtagagcatgtcacgcgccggtgctaatg--acgtgttaccttcgtgtgatcgatcggtcacagGTGGTCCATGATCGCCGCGCAGCTGCCTGGTCGGACGGACAACGAGATCAAGAATTACTGGAACACCAACGTCAAGAAGCAGCTCCGCCAGGGCCAGGCG---
upper sequence: GRMZM2G123202_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S389_40V6.1 (Physcomitrella patens), 3'ss of exon 1
---gtaaaagtct-cgagcctaaactccgtactctctctctcctcacgcgccgt-caccgtcagtacg---tgctggaacgttgtggtgtcgat---cagGTGGTCCACGATCGCGGCACAGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATGAAGCAGCAGCTCCGACAGGAGGCGCTC
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tttgttttgttttgtttttttgtgtttttttgtgtgtgtgtgcgagtgcgtggagcacagaaaaattgattttttggaatgtgttgttgttgattcgcagATGGTCTGCCATAGCTAGCCATCTTCCTCGCCGCACTGACAACGAGATCAAGAACTACTGGAACACACACTTGAAGAAGCGTCTCATGCAAATGGGAATT
upper sequence: GRMZM2G123202_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S106_216V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------gtaaaagtctcgagcctaaactccgtac---tctctctctcctcacgcgccgtca--ccgtcagtacgtgctggaacgttgtggt-----gtcg-atcagGTGGTCCACGATCGCGGCACAGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATGAAGCAGCAGCTCCGACAGGAGGCGCTC
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gtactgaattttcttcccgtcgcgttgggatgtctcatttctgcagacgtcgcgcgttggttacactccacaaaattgtcagttcctaacagcatttctcgtttcttgattgcattagATGGTCAGCCATCGCGGGCCATCTCCCCCAGCGTACAGACAACGAGATAAAGAACTACTGGAACACGCATTTGAAGAAACGTTTGGCACAGATGGGAATC
upper sequence: GRMZM2G123202_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S45_150V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------gtaaaagtctcgagcctaaactccgtactctctctctcctcacgcgccgtcaccgtcagtacgtgctggaacgttgtggtgtcgatcagGTGGTCCACGATCGCGGCACAGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATGAAGCAGCAGCTCCGACAGGAGGCGCTC
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ttgaaattttacttctttttgtaacagt-taggactagttatcttgaataccatttttttaatatatcgctttcttatttatttatttat---ttatattgt-----agGTGGTCAGCCATAGCAAGCCATCTTCCCCGCCGCACTGACAACGAGATAAAAAACTACTGGAACACGCACTTGAGGAAGCGACTGCTGCAAATGGGGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcctcacgcgccgtcaccgtcagtacgtgctggaacgttgtggtgtcgatcagGTGGTCCACGATCGCGGCACAGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATGAAGCAGCAGCTCCGACAGGAGGCGCTC
tcctcac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaagtctcgagcctaaactccgtactctctctctcctcacgcgccgtcaccgtcagtacgtgctggaacgttgtggtgtcgatcagGTGGTCCACGATCGCGGCACAGCTGCCGGGCCGGACGGACAACGAGATCAAGAACTACTGGAACACGCACATGAAGCAGCAGCTCCGACAGGAGGCGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC