Sequence
atgc intronic sequence ATGC exonic sequenceGCATAGCAGGAAACCTTGGTCAAAGTTCATCAATGCTGATAATCAGCATCTGGTTGTTCCAGAGgtatgtgaaggttttgaaaatttggttagattgcgtatcatcaatcatttgcttctggttctacatgtttttcacgcataccatcgtgagtcttcgtgttcaacattttgtttatattaatgaaagagtaaattgttattttctgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S165_119V6.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: LOC_Os07g02350.1 (Oryza sativa), 5'ss of exon 8
GCATAGCAGGAAACCTTGGTCAAAGTTCATCAATGCTGATAATCAGCATCTGGTTGTTCCAGAGgtatgtgaaggttttgaaaatttggttagattgcgtatcatcaatcatttgcttctggttctacatgtttttcacgcataccatcgtgagtcttcgtgttcaacattttgtttatattaatgaaagagtaaattgttattttctgcag
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GCACAGCAGGAAACCTTGGTCAAAGTTTATTAATGCTGACAACCAACATCTAGTATCCCCAGAGgtatttccagtgccc-----cttcttcagag-----gttatcacaaatgtacctactgtcattaaagtatta-atggttttcaacatgatttcttttctatgttag------------------------------------------
upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GRMZM2G047855_T01 (Zea mays), 5'ss of exon 8
GCATAGCAGGAAACCTTGGTCAAAGTTCATCAATGCTGATAATCAGCATCTGGTTGTTCCAGAGgtatgtgaa-ggttttgaaaatttggttagattgcgtatcatcaatcatttgcttctggttctacatgtttttcacgcataccatcgtgagtcttcgtgttcaacattttgtttatattaatgaaagagtaaattgttattttctgcag
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GCATAGTAGAAAACCCTGGTCAAAGTTCATGAATGCTGATAACCAACATCTAGTATCACCTGAGgtttgttattagctccaagtacttcagttgtttc--tactgtaaat-----ggttgttgctcagtatgattctc-tgtatat--ttgtag-----------------------------------------------------------Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|37831146|gb|BJ589158.1|BJ589158EST: CTTGGTCAAAGTTCATCAATGCTGATAATCAGCATCTGGTTGTTCCAGAG GCTGTGGATTTTTTGGATAAGCTTCTACGCTACGATCATCAAGACAGGCTG
genomic: CTTGGTCAAAGTTCATCAATGCTGATAATCAGCATCTGGTTGTTCCAGAGgtatgtgaag ... ttttctgcagGCTGTGGATTTTTTGGATAAGCTTCTACGCTACGATCATCAAGACAGGCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATAGCAGGAAACCTTGGTCAAAGTTCATCAATGCTGATAATCAGCATCTGGTTGTTCCAGAGgtatgtgaaggttttgaaaatttggttagattgcgtatcatcaatcatttgcttctggttctacatgtttttcacgcataccatcgtgagtcttcgtgttcaacattttgtttatattaatgaaagagtaaattgttattttctgcag
- - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - GCTGAT