Sequence
atgc intronic sequence ATGC exonic sequencegtatgatctcgatccatataaaccctgcgctgtttacttgccccatccctagctcgtgttgattctgaagcaacatacgttctctttcccttgcgcgcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149317_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA14G03500.1 (Glycine max), 3'ss of exon 2
gtatgatctcgatccatataaaccctgcgctgtttacttgccccatccctagctcgtgttgattctgaagcaacatacgttctctttcccttgcgcgcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
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gtatgtgattagattatattacacactcactgct-actt-cagcttctccagtgagagttattttggaattgacaattattcgttgtgcattgc----agTGTGGTGCAGAAGAACTGATGAGCTAGTGGATGGCCCAAATGCTTCACACATCACCCCTGGGGCCTTGGACAGGTGGGAGCAACGATTGAGTGATGTTTT
upper sequence: GRMZM2G149317_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G45270.1 (Glycine max), 3'ss of exon 2
gtatgatctcgatccatataaaccctgcgctgtttacttgccc--catccctagctcgtgttgattctgaagcaacatacgttctctttcccttgcgcgcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
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gtatg--tgtgattagattagattacacactcactgctatttcagcttctccagtgagacttgttttggaattgacaattattcattgtgcattgc----agTGTGGTGCAGAAGAACTGATGAGCTAGTGGATGGCCCAAATGCTTCGCACATCACCCCCGGGGCCTTGGACAGGTGGGAGCAACGACTGAGTGATGTTTT
upper sequence: GRMZM2G149317_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S323_70V6.1 (Physcomitrella patens), 3'ss of exon 2
gtatgatctcgatccatataaaccctgcgctgtttacttgccccatccctagctcgtgttgattctgaagcaacat---acgttctctttccct--tgcgc-gcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
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--agagtctgggtacttcaatgtcc---attgactgggcgaccagagtttaggataaga-gattttgccatcctctccaatggcctctttgtggaatgtgctgcagTGTGGTGCAGAAGAACTGATGAGCTGGTCGATGGACCCAATGCATCGCGCATAACGCCCACTGCGCTGGACAGATGGGAGGATAGACTGGAAGATATCTT
upper sequence: GRMZM2G149317_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ16279 (Selaginella moellendorffii), 3'ss of exon 2
gtatgatctcgatccatataaaccctgcgctgtttacttgccccatccctagctcgtgttgattctgaagcaacatacgttctctttcccttgcgcgcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
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--gtgagtt-gatctagaagaactctttgtt-tttctttgttttgtttctacttcct-ttgcggcatccgtgatttgttttttgttttctattgagctagTGTGGTGCAGGAGAACTGACGAGCTCGTGGACGGGCCAAACGCAGCACACATAACTCCCACGGCGCTGGATCGCTGGGAGCAAAGACTAGAAGATCTCTT
upper sequence: GRMZM2G149317_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ17751 (Selaginella moellendorffii), 3'ss of exon 2
gtatgatctcgatccatataaaccctgcgctgtttacttgccccatccctagctcgtgttgattctgaagcaacatacgttctctttcccttgcgcgcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
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--gtgagtt-gatctagaagaactctttgttttttctttgttttgtttctacttcct-ttgcggcatccgtgatttgttttttgttttctattgagctagTGTGGTGCAGGAGAACTGACGAGCTCGTGGACGGGCCAAACGCAGCACACATAACTCCCACGGCGCTGGATCGCTGGGAGCAAAGGCTAGAAGATCTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccctagctcgtgttgattctgaagcaacatacgttctctttcccttgcgcgcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
tgttgat putative branch site (score: 4)
tacgttctctttccct putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatctcgatccatataaaccctgcgctgtttacttgccccatccctagctcgtgttgattctgaagcaacatacgttctctttcccttgcgcgcagTGTGGTGCAGAAGAACTGACGAGCTAGTGGACGGTCCCAACGCGTCCTACATCACGCCGACCGCTCTCGACCGCTGGGAGAAGCGGCTGGAGGATCTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT