Sequence
atgc intronic sequence ATGC exonic sequenceATTCATGTTCTAATGGCATTTGCAGCCTTAGCATCAGTGCTTATGGGAAGTGCTTTGGAGGGCGGCCTACTTCTTGCAATGTTCGGTTTGTCCCATCTTGgtaagatctaatgtacatatccattttctatacctggtttacgtaattgttttacaagcttgctgattaaagagtcagatatttattctcattgttgattcctgtgtgtatgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S55_292V6.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S55_292V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GRMZM2G067853_T02 (Zea mays), 5'ss of exon 2
ATTCATGTTCTAATGGCATTTGCAGCCTTAGCATCAGTGCTTATGGGAAGTGCTTTGGAGGGCGGCCTACTTCTTGCAATGTTCGGTTTGTCCCATCTTGgtaagatctaatgtacatatccattttctatacctggtttacgtaattgttttacaagcttgctgattaaagagtcagatatttattctcattgttgattcctgtgtgtatgcag
|||||||| || ||||| ||||||| || || || | ||||||||| ||| |||||||| ||||| |||||||||||||| |||| | ||| |||||| | | | || | | | | || | | | | || | |||| ||| ||||||| || | |
ATTCATGTCCTCATGGCTCTTGCAGCATTTGCTTCTATATTTATGGGAAATGCATTGGAGGGTGGCCTGCTTCTTGCAATGTTTAATTTGGCTCATATTGgtacatttc--------ttttgataacatctgaaagccccatgtgttagctcctgttgtgtgtttattaggagttca-----ctattctcgtttcttacag--------------
upper sequence: PP1S55_292V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: Vv07s0129g01040.t01 (Vitis vinifera), 5'ss of exon 2
ATTCATGTTCTAATGGCATTTGCAGCCTTAGCATCAGTGCTTATGGGAAGTGCTTTGGAGGGCGGCCTACTTCTTGCAATGTTCGGTTTGTCCCATCTTGgtaagatctaatgtacatatccattttctatacctggtttacgtaattgttttacaagcttgctgatta--aagagtcagatatttattctcattgttga-----ttcctgtgtg-tatgcag-----------
|||||||| |||||||| |||||||||| |||||||| ||||||||| | ||||| || || |||||||||||||||| | || | ||| ||||||| || | | | | | ||| | | ||| ||| |||| | | | ||| | | ||| | |||||| | ||| || | || ||| | |||| |
ATTCATGTACTAATGGCTCTTGCAGCCTTCGCATCAGTATTTATGGGAAACCCATTGGAAGGTGGTTTACTTCTTGCAATGTTTAATCTGGCTCATATTGgtaaa---tatttcatacaaactccttcaacaactgttttctttaatgagaagatttttcttttatttatttatattcatttctttatttt-attattaacattatttttgtctaatatgtattggcactgcagMapped 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|162196306|gb|FC373530.1|FC373530EST: GGTTTGTCCCATCTTG CGGAGGAACATTTTACAGAGAAAGCTATGGTAGATGTGAAGGCATTGAAAG
genomic: GGTTTGTCCCATCTTGgtaagatcta ... gtgtatgcagCGGAGGAACATTTTACAGAGAAAGCTATGGTAGATGTGAAGGCATTGAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTCATGTTCTAATGGCATTTGCAGCCTTAGCATCAGTGCTTATGGGAAGTGCTTTGGAGGGCGGCCTACTTCTTGCAATGTTCGGTTTGTCCCATCTTGgtaagatctaatgtacatatccattttctatacctggtttacgtaattgttttacaagcttgctgattaaagagtcagatatttattctcattgttgattcctgtgtgtatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG