1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' |
gtatttagtgttcttcaagactatgcttttctcacagctattcacagaaatgcccgttgagaagtttatacatagtatttctccgatcatattattttatcatacagcatgaaagtggagggttttgtgcagatgacgaggatatcattaactgaataatttttctggctgagttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCAAGAAGCTTGAGCCAACACCTGGTGACATGTTGCGTAACCCACAATTGG
species | Physcomitrella patens |
transcript | PP1S40_14V6.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162204488|gb|FC381716.1|FC381716
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: CTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|67699996|gb|BJ960229.1|BJ960229
genomic: CTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: GAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|67693939|gb|BJ954172.1|BJ954172
genomic: GAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162191409|gb|FC368179.1|FC368179
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|37837429|gb|BJ595437.1|BJ595437
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: GAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162204214|gb|FC379687.1|FC379687
genomic: GAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|208358113|gb|DC946741.1|DC946741
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|18341604|gb|BJ173639.1|BJ173639
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|7648089|gb|AW739072.1|AW739072
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162186279|gb|FC361587.1|FC361587
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162191408|gb|FC368178.1|FC368178
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162186278|gb|FC361586.1|FC361586
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|18339226|gb|BJ171253.1|BJ171253
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162206261|gb|FC382331.1|FC382331
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|19790819|gb|BQ042072.1|BQ042072
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162279658|gb|FC455384.1|FC455384
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|37826197|gb|BJ584209.1|BJ584209
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: CCGCCTCACAAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162205698|gb|FC381900.1|FC381900
genomic: CCGCCTCAC-AAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|208382842|gb|DC923889.1|DC923889
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCEST: gi|162205699|gb|FC381901.1|FC381901
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
EST: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAG GTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
genomic: ACCGCCTCACAAGTGTGGAGACTGTACTATCACCTGGAGACAAGTTGAAGgtatttagtg ... gttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACC
tgcagatgacgaggatatcattaactgaataatttttctggctgagttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCAAGAAGCTTGAGCCAACACCTGGTGACATGTTGCGTAACCCACAATTGG
cattaac putative branch site (score: 30)
ttcatcc putative PPT
atatcattaactgaat TA-rich tract
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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtatttagtgttcttcaagactatgcttttctcacagctattcacagaaatgcccgttgagaagtttatacatagtatttctccgatcatattattttatcatacagcatgaaagtggagggttttgtgcagatgacgaggatatcattaactgaataatttttctggctgagttcatccagGTTATGGTCTTGAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCAAGAAGCTTGAGCCAACACCTGGTGACATGTTGCGTAACCCACAATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC