Sequence
atgc intronic sequence ATGC exonic sequencegtcattctgtttgctacttcacgttcatgttttctccagaatttacacatgttctttgtcaagttttcattaacagaatttgacaatatgtggtcctcactgcagTTGATTTACCGACCTGACACGGGTGAAATTCTTGGGGTTCACATTTTGGGTTTGCATGCTGCTGATCTCATTCACGAGGCATCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 12
-------------------------------------------------------------gtcattctgtt-tgctacttcacgttcatgttttctccagaatttacacatgttctttgtcaagttttcattaaca------gaatttgacaat-atgtggtcctcactgcagTTGATTTACCGACCTGACACGGGTGAAATTCTTGGGGTTCACATTTTGGGTTTGCATGCTGCTGATCTCATTCACGAGGCATCAA---------------
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gtatacatgtttttagtttgtgccacttatttctatcagttttttttccttgcagggttatttctatcagttgtgttgtcttgtctccaaattggcacctgggtattgctgtcttgcatggctt-cattcagtgacatactttgggcttgacaattgtatgttcctttctgcagTTGATTTACCGGCCTGACACTGGAGAAATTCTTGGTGTGCACATTTTGGGTTTGCACGCTGCTGACCTCATCCACGAGGCATCAAATGCCATTGCCCTAG
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA09G04270.1 (Glycine max), 3'ss of exon 7
gtcattctgtttgctacttcacgttcatgttttctccagaatttacacatgttctttgtcaagt-tttcattaac-agaatttgacaatatgtggtcctcactgcagTTGATTTACCGACCTGACACGGGTGAAATTCTTGGGGTTCACATTTTGGGTTTGCATGCTGCTGATCTCATTCACGAGGCATCAA---------------
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----tcttgaccgta--ttcactcttatgcttttctctaggtgcattgttgttgttctttacttgtctcattgtttactaactatttttaagctgttttca-tgcagTTGATATACAGACCTGACACTGGAGAGATATTGGGAGTCCATATATTTGGGTTGCATGCTGCTGATCTCATCCACGAGGCATCCAATGCAATAGCACTAG
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 12
gtcattctgtttgctacttcacgttcatgttttctccagaatttacacatgttctttgtcaagttt-tcattaacagaatttgacaatatgtggtcctcactgcagTTGATTTACCGACCTGACACGGGTGAAATTCTTGGGGTTCACATTTTGGGTTTGCATGCTGCTGATCTCATTCACGAGGCATCAA---------------
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--cttcttgaccg-tatttaactcttacctttttctctagttgcattgctgttctttacttgctttattgtttactaa--ctacttttaagctgttttca-tgcagTTGATATACAGGCCTGACACTGGAGAGATACTGGGAGTTCATATATTTGGGTTGCATGCTGCTGATCTCATCCACGAGGCATCCAATGCAATAGCATTAG
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 12
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 12
gtcattctgtttgctacttcacgttcatgttttctccagaatttacacatgttctttgtcaagttttcattaacagaatttgacaatatgtggtcctcactg-cagTTGATTTACCGACCTGACACGGGTGAAATTCTTGGGGTTCACATTTTGGGTTTGCATGCTGCTGATCTCATTCACGAGGCATCAA---------------
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---gtgaagagaagaaccaaaaattgaaataaaaaaagatagttgtatatagttctggagtgacttgcgaagataagatatctgaacactctcttcatgtgaacagATGATATACAGACCTGACAATGGTGAAATCCTTGGAGTTCATATATTTGGATTGCATGCTGCTGATCTTATCCATGAAGCATCAAACGCGATTGCTTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctttgtcaagttttcattaacagaatttgacaatatgtggtcctcactgcagTTGATTTACCGACCTGACACGGGTGAAATTCTTGGGGTTCACATTTTGGGTTTGCATGCTGCTGATCTCATTCACGAGGCATCAA
tcctcac putative branch site (score: 2)
tcctcact CT-rich tract
ttttcattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcattctgtttgctacttcacgttcatgttttctccagaatttacacatgttctttgtcaagttttcattaacagaatttgacaatatgtggtcctcactgcagTTGATTTACCGACCTGACACGGGTGAAATTCTTGGGGTTCACATTTTGGGTTTGCATGCTGCTGATCTCATTCACGAGGCATCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT