Sequence
atgc intronic sequence ATGC exonic sequenceACATGGACTACCTTGGACGTGTTCTTCTTCGGCAAGCCTTCTGTCATTGGTGCTGTGCAGGGAATGATGACCGATCTTGTGGTTATTACACCTGCTGCAGgcaagtcatcacaatacaactgcaattgtggctgcagaacttgatgcaatggcactatttggaggcctattgcagtgcatccgaggtcgatgatttaaatttcattcaatgtggtgtgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S30_275V6.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S30_275V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G043193_T01 (Zea mays), 5'ss of exon 1
ACATGGACTACCTTGGACGTGTTCTTCTTCGGCAAGCCTTCTGTCATTGGTGCTGTGCAGGGAATGATGACCGATCTTGTGGTTATTACACCTGCTGCAGgcaagtcatcacaatacaactgcaattgtggctgcagaacttgatgcaatggc-actatttggaggcc-tatt-gcagtgcatccgaggtcgatgatttaaatttcattcaatgtggtgtgcag
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ATGTGGACCCTCCTTGACGTCTTCTTCTTCGGGAAGCCGTCGGTGATCGGTGCTGTGCAGGGCATGATCACCGGCCTTGTGTGCATCACGCCTGGCGCAGgtcagt-agagtagccttgcctttctcttcgctccattggcagatggactccctaatactaacaaattatataagttgtgcaacttgcactggttggtaat-----------------------
upper sequence: PP1S30_275V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv07s0031g02990.t01 (Vitis vinifera), 5'ss of exon 2
ACATGGACTACCTTGGACGTGTTCTTCTTCGGCAAGCCTTCTGTCATTGGTGCTGTGCAGGGAATGATGACCGATCTTGTGGTTATTACACCTGCTGCAGgcaagtcatcacaatacaactgcaattgtggctgcagaacttgatgcaatggcactatttggaggcctattgcagtgcatccgaggtcgatgatttaaatttcattcaatgtggtgtgcag
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GTCTGGACCTGGCTTGATGTTATCTTCTTCAAGAAGCCTTCTGTCATTGGTGCTGTTCAGGGCATGATCACCGGCCTTGTCTGCATCACCCCTGCTGCAGgtttctcttt---------ctccattttcttctttggagaaaaaaaaaatgaacaaataaataaataaatcatt-catatttacag-----------------------------------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|162193247|gb|FC369968.1|FC369968EST: TGCTGTGCAGGGAATGATGACCGATCTTGTGGTTATTACACCTGCTGCAG GTTTAGTGCCGGGCTGGACAGCGTTGATTATGGGCATGCTAGC
genomic: TGCTGTGCAGGGAATGATGACCGATCTTGTGGTTATTACACCTGCTGCAGgcaagtcatc ... tggtgtgcagGTTTAGTGCCGGGCTGGACAGCGTTGATTATGGGCATGCTAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACATGGACTACCTTGGACGTGTTCTTCTTCGGCAAGCCTTCTGTCATTGGTGCTGTGCAGGGAATGATGACCGATCTTGTGGTTATTACACCTGCTGCAGgcaagtcatcacaatacaactgcaattgtggctgcagaacttgatgcaatggcactatttggaggcctattgcagtgcatccgaggtcgatgatttaaatttcattcaatgtggtgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG