# STOCKHOLM 1.0
#=GF ID IRES_Bip
#=GF AC RF00223
#=GF DE bip internal ribosome entry site (IRES)
#=GF AU Moxon SJ; 0000-0003-4644-1816
#=GF GA 40.0
#=GF NC 39.5
#=GF TC 42.6
#=GF PI Bip_IRES
#=GF SE http://ifr31w3.toulouse.inserm.fr/IRESdatabase/, INFERNAL
#=GF SS Predicted; PFOLD
#=GF TP Cis-reg; IRES;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 18.74 -Z 2958934 CM SEQDB
#=GF DR SO; 0000243; internal_ribosome_entry_site;
#=GF DR GO; 0043022; ribosome binding;
#=GF RN [1]
#=GF RM 12237106
#=GF RT Continuous heat shock enhances translational initiation directed by
#=GF RT internal ribosomal entry site.
#=GF RA Kim YK, Jang SK
#=GF RL Biochem Biophys Res Commun 2002;297:224-231.
#=GF CC This family represents the bip internal ribosome entry site (IRES). BiP
#=GF CC protein expression has been found to be significantly enhanced by the heat
#=GF CC shock response due to IRES-dependent translation. It is thought that this
#=GF CC translational mechanism is essential for the survival of cells under
#=GF CC stress [1].
#=GF WK bip_internal_ribosome_entry_site_(IRES)
#=GF SQ 9

X87949.1/10-255            --CCGGCCAAGACAGCACAGACAGAUUGACCUAUUGGGGUGUUUCGCGAGUGUGAGAGGGAAGCGCCGCGGCCUGUAUUUCUAGACCUGCCCUUCGCCUGGUUCGUGGCGCCUUGUGACC--CCGGGCCCCUGCCGCCUGCAAGUCGGAAAUUGCGCUGUGCUCCUGUGCUACGGCCUGUGGCUGGACUGCCUGC-----
M19645.1/379-625           CGCCGGCCAAGACAGCACAGACAGAUUGACCUAUUGGGGUGUUUCGCGAGUGUGAGAGGGAAGCGCCGCGGCCUGUAUUUCUAGACCUGCCCUUCGCCUGGUUCGUGGCGCCUUGUGACC--CCGGGCCCCUGCCGCCUGCAAGUCG-AAAUUGCGCUGUGCUCCUGUGCUACGGCCUGUGGCUGGACUGCCUGC-----
X59969.1/379-626           CGCCGGCCAAGACAGCACAGACAGAUUGACCUAUUGGGGUGUUUCGCGAGUGUGAGAGGGAAGCGCCGCGGCCUGUAUUUCUAGACCUGCCCUUCGCCUGGUUCGUGGCGCCUUGUGACC--CCGGGCCCCUGCCGCCUGCAAGUCGGAAAUUGCGCUGUGCUCCUGUGCUACGGCCUGUGGCUGGACUGCCUGC-----
BC020235.1/1-237           -----------ACAGCACAGACAGAUUGACCUAUUGGGGUGUUUCGCGAGUGUGAGAGGGAAGCGCCGCGGCCUGUAUUUCUAGACCUGCCCUUCGCCUGGUUCGUGGCGCCUUGUGACC--CCGGGCCCCUGCCGCCUGCAAGUCGGAAAUUGCGCUGUGCUCCUGUGCUACGGCCUGUGGCUGGACUGCCUGC-----
AANU01123159.1/8527-8266   CACCGGCCGAGACAGCACAGACGGACCGACCGAUUGGGGUGUUUCGCGAGUGUGAGAGGUAAGCGCCGCGGCCUGCAUUUCCAGACCUGCCCU---CCUGGUUCGUGGCGCCUUGUGACC--CCCGGCCCCUGCCGCCUGCAAGUCGGAAACCGCGCUGCGCUCCUGUGCUGCGGCCUGUGGCUGGACUGCCUGC-----
AADA01225449.1/20842-20588 CGCCGGCCGAGACGGCACAGACAGACCGACCGAUUGGGGUGUUUCCUGAAUGUGAGAGGUAAGCGCCGCGGCCUGCAUUUCCAGACCUGCCCUUCGCCUGGUUCGUGGCGCCUUGUGACC--CCUG-------CCACCUGCAAGUCGGUAACCGCGCUGCGCUCCUGUGCUGUGGCCUGUGGCUGGACUGCCUGG-----
ABDC01077565.1/377-625     CGGCGGCCAAGACAGCACGGAG---UAGACUGACUAGGGCGUUUCGGGAGGGUAAGGGGUAAACGCCGCGGCCUGCUUUUC-AGAACUCUCCCCCGCCUUGUUCGUG----------GCU--CCGGGCCCCUGCCGCCCUCACACCGGUAACCUCGCAACGCUCCCGUGCUGCGGCCUGUGGCAGGAUUGCCUGC-----
M14866.1/698-964           UACUGGCUGUGACUACACUGAC---UUGGACACUU--GGCCUUUUGCGGGUUUGAGAGGUAAGCGUCGCGGCCUGCUUCCA---GGCUACCCUGAUUUUGGUUCGUGGCUCCUCCUGACCCUGAGAACCUCUGUCGCCU-CAGAUCAGAACCGUCGUCGCGUUUCGG-GCUACAGCCUGUUGCUGGACUCUGUGAGACAC
AAQR03035598.1/3023-2765   CGCCGGCCAAGACAGCACAGACAG---GACUGACUUAGGUGUUUCUCGAACGUGAGAGGUGAGCGCCGCGGCCUCCUGUCCCAGACCUG-CCUUCGCCUUGUUCUUGGCUCCUUGUGACC--CCGGAGCCCUGCCGCCCUCAGACCCAUAACCUCGCUGCGCUCCUGUGCUGCGGCCUGUGGUAGGAUUGCCUAC-----
#=GC SS_cons               :::((((((,,,,,<<<<<<-------------<<<<<<<----------------------<<<<<<<<<_______________________________>>>>>>>>>------>>>..>>>>-------------------------------------->>>>>>,,<<<<<___>>>>>,,,,,,,,,,.....
#=GC RF                    cgccgGCcaAGACaGCACaGACAGAUuGAccuAccgGGGuGUUUCgcGAGuGUGAGAGGuAAGcGcCgCGgCCUGcaUUucuAGAcCUgCCCUucgCCUgGUuCGuGgCgCCUUgUGaCC..CcgggcCcCUGCCGCCUgCAagUCgGaAAcugCGCuGcGCUCCuGUGCUaCgGCcUGUgGCuGGAcUGCcUGc.....

X87949.1/10-255            ----------------------UGCUGCCCAACUGGCUGGCAAGAUGAAGCUCUCCCUGGUGGCCGCGAUGCUGCUG
M19645.1/379-625           ----------------------UGCUGCCCAACUGGCUGGCAAGAUGAAGCUCUCCCUGGUGGCCGCGAUGCUGCUG
X59969.1/379-626           ----------------------UGCUGCCCAACUGGCUGGCAAGAUGAAGCUCUCCCUGGUGGCCGCGAUGCUGCUG
BC020235.1/1-237           ----------------------UGCUGCCCAACUGGCUGGCAAGAUGAAGCUCUCCCUGGUGGCCGCGAUGCUGCUG
AANU01123159.1/8527-8266   -----GACGCCCUGCCUGCUGCUGCUGCCGGACUGGUUGGCAAGAUGAAGCUCUCCCUGGUGGCCGCGAUGCUGCUG
AADA01225449.1/20842-20588 --------GAUGCCCUGCCUGCUGCUGCCCGACUGGCUGGCAAGAUGAAGCUCUCCCUGGUGGCCGCGAUGCUGCUG
ABDC01077565.1/377-625     -------GACGUCCUCCCUGCCUGGUGACCCUCUGGCCGGCAAGAUGAAGCUCUCCCUGGUGGCUGCAGUGCUGCUG
M14866.1/698-964           CUGACCGACCGCUGAGCGACUGACUGGUCCACAGCGCCGGCAAGAUGAAGUUCACUGUGGUGGCGGCGGCGCUGCUG
AAQR03035598.1/3023-2765   -------GACGUCCUGCCUGCCUGGUGACCGACUCGCCGGCAAGAUGAAGCUCUCCCUGGUGGCAGCGAUGCUGCUG
#=GC SS_cons               .......,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,)))))):::::::::::
#=GC RF                    .......aacguucuuccuuucUGcUGcCCaacUgGCuGGCAAGAUGAAGCUCUCCcUGGugGCcgCGaUGCUGCUG
//
