Sequence
atgc intronic sequence ATGC exonic sequencegtactgcttcttggttttcagttcttcgactcaccccgctccaacgccatcacctctacatgcaccctgtatattcaaacgtgatatgttgttttctgttgatcagtgaggataaatgatttggaacttcatgtcaattggcattcaaaatgaggcaagtaatgatatgagggttttgtgttggccttggttgagcagAGGTGATAACGTCTGCAGAGTTTCATCCTAATCATTGCAATATTTTAGCATACAGTAGCAGCAAGGGATCTATTCGACTCATTGATATGCGCCAATCAGC
Basic information
species | Physcomitrella patens |
transcript | PP1S301_53V6.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 7
gtactgcttcttggttttcagttcttcgactcaccccgctccaacgccatcacctctacatgcaccctgtatattcaaacgtgatatgttgttttctgttgatcagtgaggataaatgatttggaacttcatgtcaattggcattcaaaatgaggcaagtaatgatatgagggttttgtgttggccttggttgagcagAGGTGATAACGTCTGCAGAGTTTCATCCTAATCATTGCAATATTTTAGCATACAGTAGCAGCAAGGGATCTATTCGACTCATTGATATGCGCCAATCAGC
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---------------------------------------------------------------------------------------gctttcctttattgttt--ttatcacatattctttgagtttcta---ctggtggcatctttgttgt--tagctactgata----gctatggttttgttctatcacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACCCACTGCAATACGTTGGCATATAGTAGCTCTAAGGGATCCATTCGACTTGTTGATCTGCGCCAATCAGC
upper sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 7
gtactgcttcttggttttcagttcttcgactcaccccgctccaacgccatcacctctacatgcaccctgtatattcaaacgtgatatgttgttttctgttgatcagtgaggataaatgatttggaacttcatgtcaattggcattcaaaatgaggcaagtaatgatatgagggttttgtgttggccttggttgagcagAGGTGATAACGTCTGCAGAGTTTCATCCTAATCATTGCAATATTTTAGCATACAGTAGCAGCAAGGGATCTATTCGACTCATTGATATGCGCCAATCAGC
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---------------------------------------------------------------------------------------gctttcctttattgttt--ttatcacatatccgttaagtttcta---ctggtggcatctctgttgt--tagctgctgata----gttattctttggttctatgacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACTCATTGCAATACATTGGCGTATAGTAGCTCTAAGGGCTCCATTCGACTTGTTGATCTGCGGCAATCAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaaaatgaggcaagtaatgatatgagggttttgtgttggccttggttgagcagAGGTGATAACGTCTGCAGAGTTTCATCCTAATCATTGCAATATTTTAGCATACAGTAGCAGCAAGGGATCTATTCGACTCATTGATATGCGCCAATCAGC
taatgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgcttcttggttttcagttcttcgactcaccccgctccaacgccatcacctctacatgcaccctgtatattcaaacgtgatatgttgttttctgttgatcagtgaggataaatgatttggaacttcatgtcaattggcattcaaaatgaggcaagtaatgatatgagggttttgtgttggccttggttgagcagAGGTGATAACGTCTGCAGAGTTTCATCCTAATCATTGCAATATTTTAGCATACAGTAGCAGCAAGGGATCTATTCGACTCATTGATATGCGCCAATCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG