Sequence
atgc intronic sequence ATGC exonic sequenceAGGGTTGCTATTGCTTTACATGAGTGAGGAAGATGCCTTTTGGCTACTAGTTGCTCTGCTTAAAGGTGCTGTCCATGCACCAATGGAAGGACTTTACTTGgtaagaccatgtatcacagatgtaacttcgtctcagatgcatcgtaatctcctcgtagatttgaggaaagatttgaaatttactattagatattagcttt...
Basic information
species | Physcomitrella patens |
transcript | PP1S15_13V6.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S15_13V6.3 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 5'ss of exon 5
AGGGTTGCTATTGCTTTACATGAGTGAGGAAGATGCCTTTTGGCTACTAGTTGCTCTGCTTAAAGGTGCTGTCCATGCACCAATGGAAGGACTTTACTTGgtaagaccatgta------tcacagatgtaacttcgtctcagatgcatcgtaatctcctcgtagatttgaggaaagatttgaaatttactattagatattagcttt
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TGGCTTGCTACTTCTTTATATGAGTGAAGAAGATGCATTTTGGTTATTAGTTGCTTTGCTGAAGGGAGCTGTTCATGCGCCAATGGAAGGTTTGTATCAGgtaatgcaattgaattcctttggccacataatttccctgtggtttcaataaattataatgattctttagaactcaaacttccaacttccgatgaaagagt------
upper sequence: PP1S15_13V6.3 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 5
AGGGTTGCTATTGCTTTACATGAGTGAGGAAGATGCCTTTTGGCTACTAGTTGCTCTGCTTAAAGGTGCTGTCCATGCACCAATGGAAGGACTTTACTTGgtaagaccatgtatcacagatgtaacttcgtctcagatgcatcgtaatctcctcgtagatttgaggaaagatttgaaatttactattagatattagcttt--
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TGGGCTGCTGCTTCTTTATATGAGTGAGGAGGATGCATTCTGGTTATTAGTCGCGTTGCTAAAGGGAGCTGTCCATGCACCAATGGAAGGCTTGTATCAGgtaatggctattatcttaggattgcattgggatttccag--ttataattcgatggctatattatggctgtctttattgtctatccttatctgacgtatataa
upper sequence: PP1S15_13V6.3 (Physcomitrella patens), 5'ss of exon 5
lower sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 5
AGGGTTGCTATTGCTTTACATGAGTGAGGAAGATGCCTTTTGGCTACTAGTTGCTCTGCTTAAAGGTGCTGTCCATGCACCAATGGAAGGACTTTACTTGgtaagaccatgtatcacagatgtaacttcgtctcagatgcatcgtaatctcctcgtagatttgaggaaagattt----gaaatttactattagatattagcttt
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CGGTTTGTTGCTTCTCTATATGAGCGAAGAAGATGCCTTCTGGTTATTAGTTGCATTACTTAAAGGAGCTGTTCATGCTCCAATGGAAGGACTGTATCATgtgagtcttttaattat---tagaagattgcaagaaa-atgttgtatagttgaatgaaacaaaaagagtattttctgcgtgagttagagtttgtgaccacgtttMapped 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|162179650|gb|FC355708.1|FC355708EST: TTGCTCTGCTTAAAGGTGCTGTCCATGCACCCATGGAAGGACTTTACTTG GTTGGCCTTCCGCTGGTTCAGCAATACCTTTTTCAGTTTGAGAGGTTGGTC
genomic: TTGCTCTGCTTAAAGGTGCTGTCCATGCACCAATGGAAGGACTTTACTTGgtaagaccat ... tctttcatagGTTGGCCTTCCGCTGGTTCAGCAGTACCTTTTTCAGTTTGAGAGGTTGGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGGTTGCTATTGCTTTACATGAGTGAGGAAGATGCCTTTTGGCTACTAGTTGCTCTGCTTAAAGGTGCTGTCCATGCACCAATGGAAGGACTTTACTTGgtaagaccatgtatcacagatgtaacttcgtctcagatgcatcgtaatctcctcgtagatttgaggaaagatttgaaatttactattagatattagcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG