Sequence
atgc intronic sequence ATGC exonic sequence...gtactacttaaaccatctaccaactctagaggccctttctctgaatttgacttcgaatcagacaccagtccaatcatgcattttttcttcttctgggcagATACTTGGTTCAGACAGTGGCTGGCAGGCAGTTCCCCTCACAGACCTTATCACAGCTGCTGGTGTCAAGAAGGCATACAGGAAGGCAACCCTTTGTGTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G316635_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g44310.1 (Oryza sativa), 3'ss of exon 6
------gtactacttaaaccatctaccaactctagaggccctttctctgaatttgacttcgaatcagacaccagtccaatcatgcattttttcttcttctgggcagATACTTGGTTCAGACAGTGGCTGGCAGGCAGTTCCCCTCACAGACCTTATCACAGCTGCTGGTGTCAAGAAGGCATACAGGAAGGCAACCCTTTGTGTCC
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aattctgcactgcatca-ttatacagtcatgttgaatttgaattttcacagatgaact--aaactggatattagtcaactcatggaaacctttttcct---ggcagATCCTTGGTTCAGATAATGGTTGGCAATCGGTTCCCCTCACAGATCTCATTACAGCAACTGCTGTCAAGAAAGCATATAGAAGGGCAACCCTTTGTGTCC
upper sequence: GRMZM2G316635_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G25190.1 (Glycine max), 3'ss of exon 8
gtactacttaaaccatctacca-actctagaggccctttctctgaatttgacttcgaatcagacac-cagtccaatcatgcattt--tttcttcttctgggcagATACTTGGTTCAGACAGTGGCTGGCAGGCAGTTCCCCTCACAGACCTTATCACAGCTGCTGGTGTCAAGAAGGCATACAGGAAGGCAACCCTTTGTGTCC
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tttttaccatctctttctcccccactatttggaacatttc-cttatcttgatt---aactagactctccatgttgttccttatctaattttttcatcttgtcagATTCTTGGGCCTGATAGTGGCTGGCAGCCAATCCCACTCACAGACGTCATTACTTCTGCTGCTGTAAAGAAAGCTTACAGGAAGGCCACCCTTTGTGTCC
upper sequence: GRMZM2G316635_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G06160.1 (Glycine max), 3'ss of exon 13
gtactacttaaaccatc--taccaactctag-aggccctttctctgaatttgacttcgaatcagacaccagtccaatcatgcattttttcttcttctgggcagATACTTGGTTCAGACAGTGGCTGGCAGGCAGTTCCCCTCACAGACCTTATCACAGCTGCTGGTGTCAAGAAGGCATACAGGAAGGCAACCCTTTGTGTCC
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--cttccttatatcatcctttttccccctattaggaacatatgcttatcctcataacaaaactc-tatttgctgttccttatctaattttttcattttgtcagATTCTTGGGCCTGATAGTGGGTGGCAGCCAATCCCACTCACGGACGTCATTACTTCTGCTGCTGTAAAGAAGGCTTATAGGAAGGCCACCCTTTGTGTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgacttcgaatcagacaccagtccaatcatgcattttttcttcttctgggcagATACTTGGTTCAGACAGTGGCTGGCAGGCAGTTCCCCTCACAGACCTTATCACAGCTGCTGGTGTCAAGAAGGCATACAGGAAGGCAACCCTTTGTGTCC
atttgac putative branch site (score: 4)
tcatgcattttttctt putative PPT
attttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactacttaaaccatctaccaactctagaggccctttctctgaatttgacttcgaatcagacaccagtccaatcatgcattttttcttcttctgggcagATACTTGGTTCAGACAGTGGCTGGCAGGCAGTTCCCCTCACAGACCTTATCACAGCTGCTGGTGTCAAGAAGGCATACAGGAAGGCAACCCTTTGTGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - -tctgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gacacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaatca