Sequence
atgc intronic sequence ATGC exonic sequencegttgagtcgtccctccaatctagctagctagtatctactatctagagtgatcggtgcggtatttgacatggttgtgcgccaaatggacggatccaccgtgcagGTTCTTCAAGGAGTACCCGCACCCTGACGACAAGCAGAGGAAGGAGCTGAGCCGGGAGCTGGGCCTGGAGCCTCTCCAGGTCAAGTTCTGGTTCCAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G004957_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ37532 (Selaginella moellendorffii), 3'ss of exon 1
gttgagtcgtccctccaatctagctagctagtatctactatctagagtgatcggtgcggtatttgacatggttgtgcgccaaatggacggatccaccgtgc-agGTTCTTCAAGGAGTACCCGCACCCTGACGACAAGCAGAGGAAGGAGCTGAGCCGGGAGCTGGGCCTGGAGCCTCTCCAGGTCAAGTTCTGGTTCCAGAAC
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----------------------------------------------gtaagtactgca--agccgagagcatgatgag--aacttatct--ttcttcgtgccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT
upper sequence: GRMZM2G004957_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ10492 (Selaginella moellendorffii), 3'ss of exon 2
gttgagtcgtccctccaatctagctagctagtatctactatctagagtgatcggtgcggtatttgacatggttgtgcgccaaatggacggatccaccgtgcagGTTCTTCAAGGAGTACCCGCACCCTGACGACAAGCAGAGGAAGGAGCTGAGCCGGGAGCTGGGCCTGGAGCCTCTCCAGGTCAAGTTCTGGTTCCAGAAC
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-------------------gtaagagattggt-tttggtgttgttctcgattggaa--gtcctcaaggtggattttttct-------tcgttttctcgcgcagCTTGTTCAAGGAGTGCCCGCATCCGGATGACAAGCAGCGGCAGGAGCTCAGCCGGGAGCTCGGATTGGAGCCGCGGCAAGTCAAGTTTTGGTTCCAGAAT
upper sequence: GRMZM2G004957_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34024 (Selaginella moellendorffii), 3'ss of exon 1
gttgagtcgtccctccaatctagctagctagtatctactatctagagtgatcggtgcggtatttgacatggttgtgcgccaaatggacggatccaccgtgcagGTTCTTCAAGGAGTACCCGCACCCTGACGACAAGCAGAGGAAGGAGCTGAGCCGGGAGCTGGGCCTGGAGCCTCTCCAGGTCAAGTTCTGGTTCCAGAAC
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-------------------------------------------------gtaagtac--tacaagccgagagcatgatgagaacttatctttcttcgtgccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcggtgcggtatttgacatggttgtgcgccaaatggacggatccaccgtgcagGTTCTTCAAGGAGTACCCGCACCCTGACGACAAGCAGAGGAAGGAGCTGAGCCGGGAGCTGGGCCTGGAGCCTCTCCAGGTCAAGTTCTGGTTCCAGAAC
atttgac putative branch site (score: 4)
tatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgagtcgtccctccaatctagctagctagtatctactatctagagtgatcggtgcggtatttgacatggttgtgcgccaaatggacggatccaccgtgcagGTTCTTCAAGGAGTACCCGCACCCTGACGACAAGCAGAGGAAGGAGCTGAGCCGGGAGCTGGGCCTGGAGCCTCTCCAGGTCAAGTTCTGGTTCCAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT